Small nuclear ribonucleoprotein F

Overview
NameSmall nuclear ribonucleoprotein F
Smed IDSMED30012188
Length (bp)408
Neoblast Clusters

Zeng et. al., 2018



▻ Overview

▻ Neoblast Population

▻ Sub-lethal Irradiated Surviving X1 and X2 Cell Population

 

 

Overview

 

Single cell RNA-seq of pluripotent neoblasts and its early progenies


We isolated X1 neoblasts cells enriched in high piwi-1 expression (Neoblast Population), and profiled ∼7,614 individual cells via scRNA-seq. Unsupervised analyses uncovered 12 distinct classes from 7,088 high-quality cells. We designated these classes Nb1 to Nb12 and ordered them based on high (Nb1) to low (Nb12) piwi-1 expression levels. We further defined groups of genes that best classified the cells parsed into 12 distinct cell clusters to generate a scaled expression heat map of discriminative gene sets for each cluster. Expression of each cluster’s gene signatures was validated using multiplex fluorescence in situ hybridization (FISH) co-stained with piwi-1 and largely confirmed the cell clusters revealed by scRNA-seq.

We also tested sub-lethal irradiation exposure. To profile rare pluripotent stem cells (PSCs) and avoid interference from immediate progenitor cells, we determined a time point after sub-lethal irradiation (7 DPI) with minimal piwi-1+ cells, followed by isolation and single-cell RNA-seq of 1,200 individual cells derived from X1 (Piwi-1 high) and X2 (Piwi-1 low) cell populations (Sub-lethal Irradiated Surviving X1 and X2 Cell Population)



Explore this single cell expression dataset with our NB Cluster Shiny App



 

Neoblast Population

 

t-SNE plot shows two-dimensional representation of global gene expression relationships among all neoblasts (n = 7,088 after filter). Cluster identity was assigned based on the top 10 marker genes of each cluster (Table S2), followed by inspection of RNA in situ hybridization patterns. Neoblast groups, Nb.


Expression of Small nuclear ribonucleoprotein F (SMED30012188) t-SNE clustered cells

Violin plots show distribution of expression levels for Small nuclear ribonucleoprotein F (SMED30012188) in cells (dots) of each of the 12 neoblast clusters.

 

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Sub-lethal Irradiated Surviving X1 and X2 Cell Population

 

t-SNE plot of surviving X1 and X2 cells (n = 1,039 after QC filter) after sub-lethal irradiation. Colors indicate unbiased cell classification via graph-based clustering. SL, sub-lethal irradiated cell groups.

Expression of Small nuclear ribonucleoprotein F (SMED30012188) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for Small nuclear ribonucleoprotein F (SMED30012188) in cells (dots) of each of the 10 clusters of sub-leathally irradiated X1 and X2 cells.

 

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Embryonic Expression

Davies et. al., 2017

Hover the mouse over a column in the graph to view average RPKM values per sample.
Sort Descending | Sort Ascending | Only Non-Zero Values | Tile/Chart | Reset

Embryonic Stages: Y: yolk. S2-S8: Stages 2-8. C4: asexual adult. SX: virgin, sexually mature adult.
For further information about sample preparation and analysis for the single animal RNA-Seq experiment, please refer to the Materials and Methods

 

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Anatomical Expression

PAGE et. al., 2020



SMED30012188

has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGE



PAGE Curations: 7

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
X1 cellSMED30012188SMESG000025747.1 SmedASXL_005590SmedAsxl_ww_GCZZ01PMID:26114597
Zhu et al., 2015		FACS sorted cell population asexual adult RNA-sequencing evidence
nervous systemSMED30012188SMESG000025747.1 dd_Smed_v4_1056_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
epidermisSMED30012188SMESG000025747.1 dd_Smed_v4_1056_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
cephalic gangliaSMED30012188SMESG000025747.1 dd_Smed_v4_1056_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
neoblastSMED30012188SMESG000025747.1 dd_Smed_v4_1056_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
parenchymal cellSMED30012188SMESG000025747.1 dd_Smed_v4_1056_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
muscle cellSMED30012188SMESG000025747.1 dd_Smed_v4_1056_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
Note: Hover over icons to view figure legend
Homology
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Human
Match: SNRPF (small nuclear ribonucleoprotein polypeptide F [Source:HGNC Symbol;Acc:HGNC:11162])

HSP 1 Score: 125.561 bits (314), Expect = 3.751e-38
Identity = 60/70 (85.71%), Postives = 65/70 (92.86%), Query Frame = 3 
Query:  114 PVNPKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYIR 323
            P+NPKPFLN LTGK V+VKLKWGMEYKGYLVSVDGYMNMQLANT+EYIDG  +G LGE+LIRCNNVLYIR
Sbjct:    4 PLNPKPFLNGLTGKPVMVKLKWGMEYKGYLVSVDGYMNMQLANTEEYIDGALSGHLGEVLIRCNNVLYIR 73
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Human
Match: SNRPF (small nuclear ribonucleoprotein polypeptide F [Source:HGNC Symbol;Acc:HGNC:11162])

HSP 1 Score: 79.7221 bits (195), Expect = 1.361e-19
Identity = 36/41 (87.80%), Postives = 39/41 (95.12%), Query Frame = 3 
Query:  114 PVNPKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQL 236
            P+NPKPFLN LTGK V+VKLKWGMEYKGYLVSVDGYMNMQ+
Sbjct:    4 PLNPKPFLNGLTGKPVMVKLKWGMEYKGYLVSVDGYMNMQI 44
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Human
Match: SNRPF (small nuclear ribonucleoprotein polypeptide F [Source:HGNC Symbol;Acc:HGNC:11162])

HSP 1 Score: 77.411 bits (189), Expect = 2.412e-19
Identity = 36/41 (87.80%), Postives = 39/41 (95.12%), Query Frame = 3 
Query:  114 PVNPKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQL 236
            P+NPKPFLN LTGK V+VKLKWGMEYKGYLVSVDGYMNMQ+
Sbjct:    4 PLNPKPFLNGLTGKPVMVKLKWGMEYKGYLVSVDGYMNMQI 44
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Human
Match: LSM6 (LSM6 homolog, U6 small nuclear RNA and mRNA degradation associated [Source:HGNC Symbol;Acc:HGNC:17017])

HSP 1 Score: 66.2402 bits (160), Expect = 7.484e-15
Identity = 32/66 (48.48%), Postives = 43/66 (65.15%), Query Frame = 3 
Query:  123 PKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYI 320
            P  FL  + G+ VVVKL  G++Y+G L  +DGYMN+ L  T+EY++G      G+  IR NNVLYI
Sbjct:    8 PSDFLKQIIGRPVVVKLNSGVDYRGVLACLDGYMNIALEQTEEYVNGQLKNKYGDAFIRGNNVLYI 73
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Human
Match: LSM6 (LSM6 homolog, U6 small nuclear RNA and mRNA degradation associated [Source:HGNC Symbol;Acc:HGNC:17017])

HSP 1 Score: 66.2402 bits (160), Expect = 7.484e-15
Identity = 32/66 (48.48%), Postives = 43/66 (65.15%), Query Frame = 3 
Query:  123 PKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYI 320
            P  FL  + G+ VVVKL  G++Y+G L  +DGYMN+ L  T+EY++G      G+  IR NNVLYI
Sbjct:    8 PSDFLKQIIGRPVVVKLNSGVDYRGVLACLDGYMNIALEQTEEYVNGQLKNKYGDAFIRGNNVLYI 73
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Celegans
Match: snr-5 (Probable small nuclear ribonucleoprotein F [Source:UniProtKB/Swiss-Prot;Acc:P34659])

HSP 1 Score: 115.161 bits (287), Expect = 2.086e-34
Identity = 54/69 (78.26%), Postives = 60/69 (86.96%), Query Frame = 3 
Query:  114 PVNPKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYI 320
            PVNPKPFLN LTGK VV KLKWGMEYKG LV+VD YMN+QLA+ +EYIDG + G LGEILIRCNNVLY+
Sbjct:    6 PVNPKPFLNSLTGKFVVCKLKWGMEYKGVLVAVDSYMNLQLAHAEEYIDGNSQGNLGEILIRCNNVLYV 74
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Celegans
Match: lsm-6 (LSM Sm-like protein [Source:UniProtKB/TrEMBL;Acc:Q95XN6])

HSP 1 Score: 66.6254 bits (161), Expect = 1.627e-15
Identity = 34/67 (50.75%), Postives = 43/67 (64.18%), Query Frame = 3 
Query:  120 NPKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYI 320
            NP  FL  + GK VVVKL  G++Y+G L  +DGYMN+ L  T+EY +G      G+  IR NNVLYI
Sbjct:    6 NPAEFLKKVIGKPVVVKLNSGVDYRGILACLDGYMNIALEQTEEYSNGQLQNKYGDAFIRGNNVLYI 72
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Fly
Match: SmF (gene:FBgn0000426 transcript:FBtr0088010)

HSP 1 Score: 123.635 bits (309), Expect = 1.198e-37
Identity = 60/83 (72.29%), Postives = 72/83 (86.75%), Query Frame = 3 
Query:   93 MSSGVTGPVNPKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYIREHDEND 341
            MS+G+  P+NPKPFLN LTGK V+VKLKWG EYKG+LVSVDGYMNMQLANT+E I+G  TG LGE+LIRCNNVLYI+  +++D
Sbjct:    1 MSAGM--PINPKPFLNGLTGKPVLVKLKWGQEYKGFLVSVDGYMNMQLANTEEVIEGSVTGNLGEVLIRCNNVLYIKGMEDDD 81
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Fly
Match: CG9344 (gene:FBgn0034564 transcript:FBtr0071520)

HSP 1 Score: 61.2326 bits (147), Expect = 2.954e-13
Identity = 30/63 (47.62%), Postives = 42/63 (66.67%), Query Frame = 3 
Query:  132 FLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYI 320
            F+N + G+ V VKL  G++Y+G L  +DGYMN+ L  T+EY++G      G+  IR NNVLYI
Sbjct:   10 FINQIHGRPVAVKLNNGVDYRGVLACLDGYMNICLEQTEEYVNGQLKNKYGDAFIRGNNVLYI 72
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Zebrafish
Match: CR855334.1 (pep chromosome:GRCz11:CHR_ALT_CTG7_1_13:19369638:19371760:1 gene:ENSDARG00000113461.1 transcript:ENSDART00000190080.1 gene_biotype:protein_coding transcript_biotype:protein_coding gene_symbol:CR855334.1)

HSP 1 Score: 125.176 bits (313), Expect = 4.278e-38
Identity = 59/73 (80.82%), Postives = 66/73 (90.41%), Query Frame = 3 
Query:  105 VTGPVNPKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYIR 323
            ++ P+NPKPFLN LTGK V+VKLKWGMEYKGYLVSVDGYMNMQLANT+EY+DG   G LGE+LIRCNNVLYIR
Sbjct:    3 ISLPLNPKPFLNGLTGKPVMVKLKWGMEYKGYLVSVDGYMNMQLANTEEYVDGALAGHLGEVLIRCNNVLYIR 75
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Zebrafish
Match: snrpf (small nuclear ribonucleoprotein polypeptide F [Source:ZFIN;Acc:ZDB-GENE-040930-9])

HSP 1 Score: 120.168 bits (300), Expect = 4.423e-36
Identity = 59/72 (81.94%), Postives = 64/72 (88.89%), Query Frame = 3 
Query:  114 PVNPKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDG--CNTGGLGEILIRCNNVLYIR 323
            P+NPKPFLN LTGK V+VKLKWGMEYKGYLVSVDGYMNMQLANT+EY+DG     G LGE+LIRCNNVLYIR
Sbjct:    4 PLNPKPFLNGLTGKPVMVKLKWGMEYKGYLVSVDGYMNMQLANTEEYVDGALALAGHLGEVLIRCNNVLYIR 75
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Zebrafish
Match: lsm6 (LSM6 homolog, U6 small nuclear RNA and mRNA degradation associated [Source:ZFIN;Acc:ZDB-GENE-040625-50])

HSP 1 Score: 63.929 bits (154), Expect = 3.748e-14
Identity = 30/66 (45.45%), Postives = 43/66 (65.15%), Query Frame = 3 
Query:  123 PKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYI 320
            P  FL  + G+ VVVKL  G++Y+G L  +DGYMN+ +  T+EY++G      G+  +R NNVLYI
Sbjct:    8 PSDFLKQIIGRPVVVKLNSGVDYRGVLACLDGYMNIAVEQTEEYVNGQLKNKYGDAFLRGNNVLYI 73
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Zebrafish
Match: lsm6 (LSM6 homolog, U6 small nuclear RNA and mRNA degradation associated [Source:ZFIN;Acc:ZDB-GENE-040625-50])

HSP 1 Score: 63.929 bits (154), Expect = 3.748e-14
Identity = 30/66 (45.45%), Postives = 43/66 (65.15%), Query Frame = 3 
Query:  123 PKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYI 320
            P  FL  + G+ VVVKL  G++Y+G L  +DGYMN+ +  T+EY++G      G+  +R NNVLYI
Sbjct:    8 PSDFLKQIIGRPVVVKLNSGVDYRGVLACLDGYMNIAVEQTEEYVNGQLKNKYGDAFLRGNNVLYI 73
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Xenopus
Match: snrpf (small nuclear ribonucleoprotein polypeptide F [Source:NCBI gene;Acc:448659])

HSP 1 Score: 125.561 bits (314), Expect = 3.267e-38
Identity = 60/70 (85.71%), Postives = 65/70 (92.86%), Query Frame = 3 
Query:  114 PVNPKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYIR 323
            P+NPKPFLN LTGK V+VKLKWGMEYKGYLVSVDGYMNMQLANT+EYIDG  +G LGE+LIRCNNVLYIR
Sbjct:    3 PLNPKPFLNGLTGKPVMVKLKWGMEYKGYLVSVDGYMNMQLANTEEYIDGALSGHLGEVLIRCNNVLYIR 72
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Xenopus
Match: snrpf (small nuclear ribonucleoprotein polypeptide F [Source:NCBI gene;Acc:448659])

HSP 1 Score: 125.561 bits (314), Expect = 3.401e-38
Identity = 60/70 (85.71%), Postives = 65/70 (92.86%), Query Frame = 3 
Query:  114 PVNPKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYIR 323
            P+NPKPFLN LTGK V+VKLKWGMEYKGYLVSVDGYMNMQLANT+EYIDG  +G LGE+LIRCNNVLYIR
Sbjct:    4 PLNPKPFLNGLTGKPVMVKLKWGMEYKGYLVSVDGYMNMQLANTEEYIDGALSGHLGEVLIRCNNVLYIR 73
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Xenopus
Match: lsm6 (LSM6 homolog, U6 small nuclear RNA and mRNA degradation associated [Source:NCBI gene;Acc:779701])

HSP 1 Score: 66.2402 bits (160), Expect = 6.784e-15
Identity = 32/66 (48.48%), Postives = 43/66 (65.15%), Query Frame = 3 
Query:  123 PKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYI 320
            P  FL  + G+ VVVKL  G++Y+G L  +DGYMN+ L  T+EY++G      G+  IR NNVLYI
Sbjct:    8 PSDFLKQIIGRPVVVKLNSGVDYRGVLACLDGYMNIALEQTEEYVNGQLKNKYGDAFIRGNNVLYI 73
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Xenopus
Match: lsm6 (LSM6 homolog, U6 small nuclear RNA and mRNA degradation associated [Source:NCBI gene;Acc:779701])

HSP 1 Score: 58.9214 bits (141), Expect = 4.093e-12
Identity = 28/62 (45.16%), Postives = 39/62 (62.90%), Query Frame = 3 
Query:  123 PKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNN 308
            P  FL  + G+ VVVKL  G++Y+G L  +DGYMN+ L  T+EY++G      G+  IR NN
Sbjct:    8 PSDFLKQIIGRPVVVKLNSGVDYRGVLACLDGYMNIALEQTEEYVNGQLKNKYGDAFIRGNN 69
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Mouse
Match: Snrpf (small nuclear ribonucleoprotein polypeptide F [Source:MGI Symbol;Acc:MGI:1917128])

HSP 1 Score: 125.561 bits (314), Expect = 2.576e-38
Identity = 60/70 (85.71%), Postives = 65/70 (92.86%), Query Frame = 3 
Query:  114 PVNPKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYIR 323
            P+NPKPFLN LTGK V+VKLKWGMEYKGYLVSVDGYMNMQLANT+EYIDG  +G LGE+LIRCNNVLYIR
Sbjct:    4 PLNPKPFLNGLTGKPVMVKLKWGMEYKGYLVSVDGYMNMQLANTEEYIDGALSGHLGEVLIRCNNVLYIR 73
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Mouse
Match: Lsm6 (LSM6 homolog, U6 small nuclear RNA and mRNA degradation associated [Source:MGI Symbol;Acc:MGI:1925901])

HSP 1 Score: 66.2402 bits (160), Expect = 5.138e-15
Identity = 32/66 (48.48%), Postives = 43/66 (65.15%), Query Frame = 3 
Query:  123 PKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYI 320
            P  FL  + G+ VVVKL  G++Y+G L  +DGYMN+ L  T+EY++G      G+  IR NNVLYI
Sbjct:    8 PSDFLKQIIGRPVVVKLNSGVDYRGVLACLDGYMNIALEQTEEYVNGQLKNKYGDAFIRGNNVLYI 73
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Mouse
Match: Lsm6 (LSM6 homolog, U6 small nuclear RNA and mRNA degradation associated [Source:MGI Symbol;Acc:MGI:1925901])

HSP 1 Score: 66.2402 bits (160), Expect = 5.138e-15
Identity = 32/66 (48.48%), Postives = 43/66 (65.15%), Query Frame = 3 
Query:  123 PKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYI 320
            P  FL  + G+ VVVKL  G++Y+G L  +DGYMN+ L  T+EY++G      G+  IR NNVLYI
Sbjct:    8 PSDFLKQIIGRPVVVKLNSGVDYRGVLACLDGYMNIALEQTEEYVNGQLKNKYGDAFIRGNNVLYI 73
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Mouse
Match: Lsm6 (LSM6 homolog, U6 small nuclear RNA and mRNA degradation associated [Source:MGI Symbol;Acc:MGI:1925901])

HSP 1 Score: 66.2402 bits (160), Expect = 5.138e-15
Identity = 32/66 (48.48%), Postives = 43/66 (65.15%), Query Frame = 3 
Query:  123 PKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYI 320
            P  FL  + G+ VVVKL  G++Y+G L  +DGYMN+ L  T+EY++G      G+  IR NNVLYI
Sbjct:    8 PSDFLKQIIGRPVVVKLNSGVDYRGVLACLDGYMNIALEQTEEYVNGQLKNKYGDAFIRGNNVLYI 73
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. UniProt/SwissProt
Match: sp|P62321|RUXF_XENLA (Small nuclear ribonucleoprotein F OS=Xenopus laevis OX=8355 GN=snrpf PE=3 SV=1)

HSP 1 Score: 125.561 bits (314), Expect = 1.802e-37
Identity = 60/70 (85.71%), Postives = 65/70 (92.86%), Query Frame = 3 
Query:  114 PVNPKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYIR 323
            P+NPKPFLN LTGK V+VKLKWGMEYKGYLVSVDGYMNMQLANT+EYIDG  +G LGE+LIRCNNVLYIR
Sbjct:    4 PLNPKPFLNGLTGKPVMVKLKWGMEYKGYLVSVDGYMNMQLANTEEYIDGALSGHLGEVLIRCNNVLYIR 73
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. UniProt/SwissProt
Match: sp|P62307|RUXF_MOUSE (Small nuclear ribonucleoprotein F OS=Mus musculus OX=10090 GN=Snrpf PE=1 SV=1)

HSP 1 Score: 125.561 bits (314), Expect = 1.802e-37
Identity = 60/70 (85.71%), Postives = 65/70 (92.86%), Query Frame = 3 
Query:  114 PVNPKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYIR 323
            P+NPKPFLN LTGK V+VKLKWGMEYKGYLVSVDGYMNMQLANT+EYIDG  +G LGE+LIRCNNVLYIR
Sbjct:    4 PLNPKPFLNGLTGKPVMVKLKWGMEYKGYLVSVDGYMNMQLANTEEYIDGALSGHLGEVLIRCNNVLYIR 73
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. UniProt/SwissProt
Match: sp|P62306|RUXF_HUMAN (Small nuclear ribonucleoprotein F OS=Homo sapiens OX=9606 GN=SNRPF PE=1 SV=1)

HSP 1 Score: 125.561 bits (314), Expect = 1.802e-37
Identity = 60/70 (85.71%), Postives = 65/70 (92.86%), Query Frame = 3 
Query:  114 PVNPKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYIR 323
            P+NPKPFLN LTGK V+VKLKWGMEYKGYLVSVDGYMNMQLANT+EYIDG  +G LGE+LIRCNNVLYIR
Sbjct:    4 PLNPKPFLNGLTGKPVMVKLKWGMEYKGYLVSVDGYMNMQLANTEEYIDGALSGHLGEVLIRCNNVLYIR 73
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. UniProt/SwissProt
Match: sp|Q3T0Z8|RUXF_BOVIN (Small nuclear ribonucleoprotein F OS=Bos taurus OX=9913 GN=SNRPF PE=3 SV=2)

HSP 1 Score: 125.561 bits (314), Expect = 1.802e-37
Identity = 60/70 (85.71%), Postives = 65/70 (92.86%), Query Frame = 3 
Query:  114 PVNPKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYIR 323
            P+NPKPFLN LTGK V+VKLKWGMEYKGYLVSVDGYMNMQLANT+EYIDG  +G LGE+LIRCNNVLYIR
Sbjct:    4 PLNPKPFLNGLTGKPVMVKLKWGMEYKGYLVSVDGYMNMQLANTEEYIDGALSGHLGEVLIRCNNVLYIR 73
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. UniProt/SwissProt
Match: sp|Q9SUM2|RUXF_ARATH (Probable small nuclear ribonucleoprotein F OS=Arabidopsis thaliana OX=3702 GN=At4g30220 PE=3 SV=1)

HSP 1 Score: 124.02 bits (310), Expect = 8.096e-37
Identity = 59/79 (74.68%), Postives = 67/79 (84.81%), Query Frame = 3 
Query:  105 VTGPVNPKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYIREHDEND 341
             T PVNPKPFLN+LTGK V+VKLKWGMEYKG+L SVD YMN+QL NT+EYIDG  TG LGEILIRCNNVLY+R   E++
Sbjct:    2 ATIPVNPKPFLNNLTGKTVIVKLKWGMEYKGFLASVDSYMNLQLGNTEEYIDGQLTGNLGEILIRCNNVLYVRGVPEDE 80
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. TrEMBL
Match: A0A267H725 (Sm domain-containing protein (Fragment) OS=Macrostomum lignano OX=282301 GN=BOX15_Mlig017958g1 PE=4 SV=1)

HSP 1 Score: 136.346 bits (342), Expect = 3.403e-39
Identity = 65/88 (73.86%), Postives = 73/88 (82.95%), Query Frame = 3 
Query:   93 MSSGVTGPVNPKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYIREHDENDPNYAD 356
            MS+GVT  +NPKPFL  LTGK VVVKLKWGMEYKG+LVSVD YMN+QLAN +E+IDGC TG LGE+LIRCNNVLYIR  DE +   AD
Sbjct:    5 MSAGVT-TINPKPFLASLTGKAVVVKLKWGMEYKGFLVSVDSYMNLQLANAEEFIDGCQTGHLGEMLIRCNNVLYIRAADEEEDIEAD 91
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. TrEMBL
Match: A0A1Y1X8B1 (Small nuclear ribonucleo protein SmF OS=Anaeromyces robustus OX=1754192 GN=BCR32DRAFT_292947 PE=3 SV=1)

HSP 1 Score: 132.109 bits (331), Expect = 1.495e-37
Identity = 62/79 (78.48%), Postives = 70/79 (88.61%), Query Frame = 3 
Query:  105 VTGPVNPKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYIREHDEND 341
            V G VNPKPFLN+LTGK ++VKLKWGMEYKGYL SVD YMN+QLANT+EYIDG +TG LGE+LIRCNNVLYIRE  E+D
Sbjct:    3 VNGVVNPKPFLNELTGKPIIVKLKWGMEYKGYLTSVDSYMNLQLANTEEYIDGASTGVLGEVLIRCNNVLYIREIKEDD 81
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. TrEMBL
Match: A0A1Y2D7G9 (Small nuclear ribonucleo protein SmF OS=Neocallimastix californiae OX=1754190 GN=LY90DRAFT_455605 PE=3 SV=1)

HSP 1 Score: 130.954 bits (328), Expect = 3.904e-37
Identity = 61/78 (78.21%), Postives = 70/78 (89.74%), Query Frame = 3 
Query:  105 VTGPVNPKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYIREHDEN 338
            V G VNPKPFLN+LTGK ++VKLKWGMEYKGYL SVD YMN+QLANT+EYIDG +TG LGE+LIRCNNVLYIRE +E+
Sbjct:    3 VNGVVNPKPFLNELTGKPIIVKLKWGMEYKGYLTSVDSYMNLQLANTEEYIDGASTGVLGEVLIRCNNVLYIRELEED 80
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. TrEMBL
Match: A0A5E4F8R8 (PREDICTED: small nuclear (Fragment) OS=Prunus dulcis OX=3755 GN=ALMOND_2B032267 PE=4 SV=1)

HSP 1 Score: 131.724 bits (330), Expect = 6.752e-37
Identity = 61/78 (78.21%), Postives = 68/78 (87.18%), Query Frame = 3 
Query:   90 AMSSGVTGPVNPKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYIR 323
            + S   T PVNPKPFLN+LTGK V+VKLKWGMEYKG+LVSVD YMN+QLANT+EYIDG  TG LGEILIRCNNVLY+R
Sbjct:   31 SQSPMATIPVNPKPFLNNLTGKTVIVKLKWGMEYKGFLVSVDSYMNLQLANTEEYIDGQFTGNLGEILIRCNNVLYLR 108
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. TrEMBL
Match: A0A1Y2C9N3 (Small nuclear ribonucleo protein SmF OS=Neocallimastix californiae OX=1754190 GN=LY90DRAFT_458132 PE=3 SV=1)

HSP 1 Score: 130.183 bits (326), Expect = 7.207e-37
Identity = 61/78 (78.21%), Postives = 69/78 (88.46%), Query Frame = 3 
Query:  105 VTGPVNPKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYIREHDEN 338
            V G VNPKPFLN+LTGK ++VKLKWGMEYKGYL SVD YMN+QLANT+EYIDG +TG LGE+LIRCNNVLYIRE  E+
Sbjct:    3 VNGVVNPKPFLNELTGKPIIVKLKWGMEYKGYLTSVDSYMNLQLANTEEYIDGASTGVLGEVLIRCNNVLYIRELKED 80
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Cavefish
Match: snrpf (small nuclear ribonucleoprotein polypeptide F [Source:ZFIN;Acc:ZDB-GENE-040930-9])

HSP 1 Score: 117.087 bits (292), Expect = 5.590e-35
Identity = 57/70 (81.43%), Postives = 63/70 (90.00%), Query Frame = 3 
Query:  114 PVNPKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYIR 323
            P+NPKPFLN LTGK V+VKLKWGMEYKGYLVSVDGYMNMQLANT+EY+DG   G LGE+L+ CNNVLYIR
Sbjct:    4 PLNPKPFLNGLTGKPVMVKLKWGMEYKGYLVSVDGYMNMQLANTEEYVDGALAGHLGEVLV-CNNVLYIR 72
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Cavefish
Match: lsm6 (LSM6 homolog, U6 small nuclear RNA and mRNA degradation associated [Source:NCBI gene;Acc:103021323])

HSP 1 Score: 65.855 bits (159), Expect = 2.049e-14
Identity = 33/84 (39.29%), Postives = 48/84 (57.14%), Query Frame = 3 
Query:   69 LLFLIYLAMSSGVTGPVNPKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYI 320
            L FL +  +         P  FL  + G+ VVVKL  G++Y+G L  +DGYMN+ +  T+EY++G      G+  +R NNVLYI
Sbjct:   38 LFFLFHSLLVKMSLRKQTPSDFLKQIIGRPVVVKLNSGVDYRGVLACLDGYMNIAVEQTEEYVNGQLKNKYGDAFLRGNNVLYI 121
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Cavefish
Match: lsm6 (LSM6 homolog, U6 small nuclear RNA and mRNA degradation associated [Source:NCBI gene;Acc:103021323])

HSP 1 Score: 63.929 bits (154), Expect = 3.176e-14
Identity = 30/66 (45.45%), Postives = 43/66 (65.15%), Query Frame = 3 
Query:  123 PKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYI 320
            P  FL  + G+ VVVKL  G++Y+G L  +DGYMN+ +  T+EY++G      G+  +R NNVLYI
Sbjct:    8 PSDFLKQIIGRPVVVKLNSGVDYRGVLACLDGYMNIAVEQTEEYVNGQLKNKYGDAFLRGNNVLYI 73
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Sea Lamprey
Match: lsm6 (LSM6 homolog, U6 small nuclear RNA and mRNA degradation associated [Source:ZFIN;Acc:ZDB-GENE-040625-50])

HSP 1 Score: 66.2402 bits (160), Expect = 7.754e-16
Identity = 32/66 (48.48%), Postives = 43/66 (65.15%), Query Frame = 3 
Query:  123 PKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYI 320
            P  FL  + G+ VVVKL  G++Y+G L  +DGYMN+ L  T+EY++G      G+  IR NNVLYI
Sbjct:    8 PSDFLKQIIGRPVVVKLNSGVDYRGVLACLDGYMNIALEQTEEYVNGQLKNKYGDAFIRGNNVLYI 73
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Yeast
Match: SMX3 (Core Sm protein Sm F; part of heteroheptameric complex (with Smb1p, Smd1p, Smd2p, Smd3p, Sme1p, and Smx2p) that is part of the spliceosomal U1, U2, U4, and U5 snRNPs; homolog of human Sm F [Source:SGD;Acc:S000006386])

HSP 1 Score: 88.1965 bits (217), Expect = 1.478e-24
Identity = 45/83 (54.22%), Postives = 56/83 (67.47%), Query Frame = 3 
Query:   87 LAMSSGVTG--PVNPKPFLNDLTGKVVVVKLKW-GMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYIRE 326
            ++ SS ++   PVNPKPFL  L    V VKLK+   EY+G LVS D Y N+QL   +E++ G + G LGEI IRCNNVLYIRE
Sbjct:    1 MSESSDISAMQPVNPKPFLKGLVNHRVGVKLKFNSTEYRGTLVSTDNYFNLQLNEAEEFVAGVSHGTLGEIFIRCNNVLYIRE 83
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Yeast
Match: LSM6 (Lsm (Like Sm) protein; part of heteroheptameric complexes (Lsm2p-7p and either Lsm1p or 8p): cytoplasmic Lsm1p complex involved in mRNA decay; nuclear Lsm8p complex part of U6 snRNP and possibly involved in processing tRNA, snoRNA, and rRNA [Source:SGD;Acc:S000002786])

HSP 1 Score: 50.0618 bits (118), Expect = 1.260e-9
Identity = 25/71 (35.21%), Postives = 39/71 (54.93%), Query Frame = 3 
Query:  129 PFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDG----CNTGGLGEILIRCNNVLYIREH 329
             FL+D+ GK V VKL  G+ Y G L S+DG+MN+ L++  E+ +            ++ +R   V+YI E 
Sbjct:   14 EFLSDIIGKTVNVKLASGLLYSGRLESIDGFMNVALSSATEHYESNNNKLLNKFNSDVFLRGTQVMYISEQ 84
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Nematostella
Match: EDO43950 (Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7RX20])

HSP 1 Score: 125.561 bits (314), Expect = 7.493e-39
Identity = 57/70 (81.43%), Postives = 65/70 (92.86%), Query Frame = 3 
Query:  114 PVNPKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYIR 323
            P+NPKPFLN LTGK V++KLKWGMEYKGYLVSVDGYMN+QLANT+E+IDG  TG LGE+LIRCNNVLY+R
Sbjct:    6 PLNPKPFLNSLTGKPVIIKLKWGMEYKGYLVSVDGYMNLQLANTEEFIDGALTGNLGEVLIRCNNVLYVR 75
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Nematostella
Match: EDO32518 (Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7SUU3])

HSP 1 Score: 63.1586 bits (152), Expect = 2.240e-14
Identity = 31/66 (46.97%), Postives = 43/66 (65.15%), Query Frame = 3 
Query:  123 PKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYI 320
            P  FL  + G+ VVVKL  G++Y+G L  +DGYMN+ +  T+EY++G      G+  IR NNVLYI
Sbjct:    7 PSDFLKLIIGRPVVVKLNNGVDYRGVLACLDGYMNIAMEQTEEYVNGQLKNKYGDAFIRGNNVLYI 72
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Medaka
Match: lsm6 (LSM6 homolog, U6 small nuclear RNA and mRNA degradation associated [Source:NCBI gene;Acc:101156227])

HSP 1 Score: 64.3142 bits (155), Expect = 2.308e-14
Identity = 30/66 (45.45%), Postives = 43/66 (65.15%), Query Frame = 3 
Query:  123 PKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYI 320
            P  FL  + G+ VVVKL  G++Y+G L  +DGYMN+ +  T+EY++G      G+  +R NNVLYI
Sbjct:    8 PSDFLKQIIGRPVVVKLNSGVDYRGVLACLDGYMNIAIEQTEEYVNGQLKNKYGDAFLRGNNVLYI 73
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. Planmine SMEST
Match: SMESG000025747.1 (SMESG000025747.1)

HSP 1 Score: 182.57 bits (462), Expect = 6.038e-61
Identity = 88/88 (100.00%), Postives = 88/88 (100.00%), Query Frame = 3 
Query:   93 MSSGVTGPVNPKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYIREHDENDPNYAD 356
            MSSGVTGPVNPKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYIREHDENDPNYAD
Sbjct:    1 MSSGVTGPVNPKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYIREHDENDPNYAD 88
[Close]
BLAST of Small nuclear ribonucleoprotein F vs. Planmine SMEST
Match: SMESG000023497.1 (SMESG000023497.1)

HSP 1 Score: 67.3958 bits (163), Expect = 1.115e-15
Identity = 33/67 (49.25%), Postives = 44/67 (65.67%), Query Frame = 3 
Query:  120 NPKPFLNDLTGKVVVVKLKWGMEYKGYLVSVDGYMNMQLANTQEYIDGCNTGGLGEILIRCNNVLYI 320
            NP  FL  ++ K V+VKL  G +Y+G LVS+DGYMN+ L  T+EY++G       +  IR NNVLYI
Sbjct:    6 NPSDFLKAISEKPVLVKLTTGADYRGVLVSLDGYMNLMLEQTEEYVNGQLKNKYNDTFIRGNNVLYI 72
The following BLAST results are available for this feature:
BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99)
Total hits: 5
Match NameE-valueIdentityDescription
SNRPF3.751e-3885.71small nuclear ribonucleoprotein polypeptide F [Sou... [more]
SNRPF1.361e-1987.80small nuclear ribonucleoprotein polypeptide F [Sou... [more]
SNRPF2.412e-1987.80small nuclear ribonucleoprotein polypeptide F [Sou... [more]
LSM67.484e-1548.48LSM6 homolog, U6 small nuclear RNA and mRNA degrad... [more]
LSM67.484e-1548.48LSM6 homolog, U6 small nuclear RNA and mRNA degrad... [more]
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BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99)
Total hits: 2
Match NameE-valueIdentityDescription
snr-52.086e-3478.26Probable small nuclear ribonucleoprotein F [Sourc... [more]
lsm-61.627e-1550.75LSM Sm-like protein [Source:UniProtKB/TrEMBL;Acc:... [more]
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BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99)
Total hits: 2
Match NameE-valueIdentityDescription
SmF1.198e-3772.29gene:FBgn0000426 transcript:FBtr0088010[more]
CG93442.954e-1347.62gene:FBgn0034564 transcript:FBtr0071520[more]
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BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99)
Total hits: 4
Match NameE-valueIdentityDescription
CR855334.14.278e-3880.82pep chromosome:GRCz11:CHR_ALT_CTG7_1_13:19369638:1... [more]
snrpf4.423e-3681.94small nuclear ribonucleoprotein polypeptide F [Sou... [more]
lsm63.748e-1445.45LSM6 homolog, U6 small nuclear RNA and mRNA degrad... [more]
lsm63.748e-1445.45LSM6 homolog, U6 small nuclear RNA and mRNA degrad... [more]
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BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99)
Total hits: 4
Match NameE-valueIdentityDescription
snrpf3.267e-3885.71small nuclear ribonucleoprotein polypeptide F [Sou... [more]
snrpf3.401e-3885.71small nuclear ribonucleoprotein polypeptide F [Sou... [more]
lsm66.784e-1548.48LSM6 homolog, U6 small nuclear RNA and mRNA degrad... [more]
lsm64.093e-1245.16LSM6 homolog, U6 small nuclear RNA and mRNA degrad... [more]
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BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99)
Total hits: 4
Match NameE-valueIdentityDescription
Snrpf2.576e-3885.71small nuclear ribonucleoprotein polypeptide F [Sou... [more]
Lsm65.138e-1548.48LSM6 homolog, U6 small nuclear RNA and mRNA degrad... [more]
Lsm65.138e-1548.48LSM6 homolog, U6 small nuclear RNA and mRNA degrad... [more]
Lsm65.138e-1548.48LSM6 homolog, U6 small nuclear RNA and mRNA degrad... [more]
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BLAST of Small nuclear ribonucleoprotein F vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt)
Total hits: 5
Match NameE-valueIdentityDescription
sp|P62321|RUXF_XENLA1.802e-3785.71Small nuclear ribonucleoprotein F OS=Xenopus laevi... [more]
sp|P62307|RUXF_MOUSE1.802e-3785.71Small nuclear ribonucleoprotein F OS=Mus musculus ... [more]
sp|P62306|RUXF_HUMAN1.802e-3785.71Small nuclear ribonucleoprotein F OS=Homo sapiens ... [more]
sp|Q3T0Z8|RUXF_BOVIN1.802e-3785.71Small nuclear ribonucleoprotein F OS=Bos taurus OX... [more]
sp|Q9SUM2|RUXF_ARATH8.096e-3774.68Probable small nuclear ribonucleoprotein F OS=Arab... [more]
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BLAST of Small nuclear ribonucleoprotein F vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
A0A267H7253.403e-3973.86Sm domain-containing protein (Fragment) OS=Macrost... [more]
A0A1Y1X8B11.495e-3778.48Small nuclear ribonucleo protein SmF OS=Anaeromyce... [more]
A0A1Y2D7G93.904e-3778.21Small nuclear ribonucleo protein SmF OS=Neocallima... [more]
A0A5E4F8R86.752e-3778.21PREDICTED: small nuclear (Fragment) OS=Prunus dulc... [more]
A0A1Y2C9N37.207e-3778.21Small nuclear ribonucleo protein SmF OS=Neocallima... [more]
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BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99)
Total hits: 3
Match NameE-valueIdentityDescription
snrpf5.590e-3581.43small nuclear ribonucleoprotein polypeptide F [Sou... [more]
lsm62.049e-1439.29LSM6 homolog, U6 small nuclear RNA and mRNA degrad... [more]
lsm63.176e-1445.45LSM6 homolog, U6 small nuclear RNA and mRNA degrad... [more]
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BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99)
Total hits: 1
Match NameE-valueIdentityDescription
lsm67.754e-1648.48LSM6 homolog, U6 small nuclear RNA and mRNA degrad... [more]
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BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46)
Total hits: 2
Match NameE-valueIdentityDescription
SMX31.478e-2454.22Core Sm protein Sm F; part of heteroheptameric com... [more]
LSM61.260e-935.21Lsm (Like Sm) protein; part of heteroheptameric co... [more]
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BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46)
Total hits: 2
Match NameE-valueIdentityDescription
EDO439507.493e-3981.43Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7... [more]
EDO325182.240e-1446.97Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7... [more]
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BLAST of Small nuclear ribonucleoprotein F vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99)
Total hits: 1
Match NameE-valueIdentityDescription
lsm62.308e-1445.45LSM6 homolog, U6 small nuclear RNA and mRNA degrad... [more]
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BLAST of Small nuclear ribonucleoprotein F vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 2
Match NameE-valueIdentityDescription
SMESG000025747.16.038e-61100.00SMESG000025747.1[more]
SMESG000023497.11.115e-1549.25SMESG000023497.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30012188 ID=SMED30012188|Name=Small nuclear ribonucleoprotein F|organism=Schmidtea mediterranea sexual|type=transcript|length=408bp
GACACATTTTGTTTAAATTTCTAAACTTTCAAAATTATTTTAAAGTAGTT
TCATTTTGTAATTAAGTACTTTTGTTTTTAATCTATTTAGCAATGTCATC
TGGTGTTACTGGTCCTGTTAATCCAAAGCCATTTCTTAACGATCTAACTG
GAAAAGTTGTCGTTGTTAAACTCAAATGGGGTATGGAGTATAAAGGTTAT
TTGGTCTCAGTAGATGGATATATGAATATGCAGCTAGCTAATACTCAAGA
ATATATCGATGGTTGTAATACAGGTGGACTTGGAGAAATTCTTATTCGAT
GCAACAATGTTTTATATATTCGAGAACATGACGAAAATGATCCTAATTAT
GCTGATTAAATCTTGTATATAAATGTAATTAAATATAATGTCATGTATCA
GTTCTATT
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: cellular component
TermDefinition
GO:0046540U4/U6 x U5 tri-snRNP complex
GO:0071005U2-type precatalytic spliceosome
GO:0071007U2-type catalytic step 2 spliceosome
GO:0005732small nucleolar ribonucleoprotein complex
GO:0005634nucleus
GO:0005681spliceosomal complex
GO:0005685U1 snRNP
GO:0005687U4 snRNP
GO:0005737cytoplasm
GO:0005829cytosol
GO:0030529intracellular ribonucleoprotein complex
GO:0034709methylosome
GO:0034715pICln-Sm protein complex
GO:0034719SMN-Sm protein complex
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000429neoblast
PLANA:0002109X1 cell
Vocabulary: INTERPRO
TermDefinition
IPR034100Sm_F
IPR001163LSM_dom_euk/arc
IPR016487Lsm6/sSmF
IPR010920LSM_dom_sf
Vocabulary: biological process
TermDefinition
GO:0000398mRNA splicing, via spliceosome
GO:0000387spliceosomal snRNP assembly
GO:0006397mRNA processing
GO:0008380RNA splicing
Vocabulary: molecular function
TermDefinition
GO:0003723RNA binding
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR001163LSM domain, eukaryotic/archaea-typeSMARTSM00651Sm3coord: 13..78
e-value: 5.0E-23
score: 92.5
IPR001163LSM domain, eukaryotic/archaea-typePFAMPF01423LSMcoord: 14..77
e-value: 2.4E-21
score: 75.2
NoneNo IPR availableGENE3DG3DSA:2.30.30.100coord: 3..80
e-value: 1.2E-30
score: 106.9
NoneNo IPR availablePANTHERPTHR11021:SF0SMALL NUCLEAR RIBONUCLEOPROTEIN POLYPEPTIDE Fcoord: 7..83
IPR016487Sm-like protein Lsm6/SmFPIRSFPIRSF006609snRNP_SmFcoord: 1..86
e-value: 1.9E-38
score: 127.9
IPR016487Sm-like protein Lsm6/SmFPANTHERPTHR11021SMALL NUCLEAR RIBONUCLEOPROTEIN F SNRNP-Fcoord: 7..83
IPR034100Small nuclear ribonucleoprotein FCDDcd01722Sm_Fcoord: 10..78
e-value: 6.84445E-47
score: 141.966
IPR010920LSM domain superfamilySUPERFAMILYSSF50182Sm-like ribonucleoproteinscoord: 11..81