SMED30005887

Overview
NameSMED30005887
Smed IDSMED30005887
Length (bp)552
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 SMED30005887 (SMED30005887) t-SNE clustered cells

Violin plots show distribution of expression levels for SMED30005887 (SMED30005887) 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 SMED30005887 (SMED30005887) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for SMED30005887 (SMED30005887) 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



SMED30005887

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



PAGE Curations: 6

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
neuronSMED30005887h1SMcG0015536 Contig42120uc_Smed_v2PMID:27612384
Roberts-Galbraith et al., 2016		whole organism asexual adult colorimetric in situ hybridization evidence
neuronSMED30005887h1SMcG0015536 Contig42120newmark_estsPMID:27612384
Roberts-Galbraith et al., 2016		whole organism asexual adult colorimetric in situ hybridization evidence
reproductive organSMED30005887h1SMcG0015537 Contig14546newmark_estsPMID:28434803
Rouhana et al., 2017		whole organism adult hermaphrodite RNA-sequencing evidence
reproductive organSMED30005887h1SMcG0015537 Contig14546uc_Smed_v2PMID:28434803
Rouhana et al., 2017		whole organism adult hermaphrodite RNA-sequencing evidence
reproductive organSMED30005887h1SMcG0015536 Contig14546newmark_estsPMID:28434803
Rouhana et al., 2017		whole organism adult hermaphrodite RNA-sequencing evidence
reproductive organSMED30005887h1SMcG0015536 Contig14546uc_Smed_v2PMID:28434803
Rouhana et al., 2017		whole organism adult hermaphrodite RNA-sequencing evidence
Note: Hover over icons to view figure legend
Alignments
SMED30005887 aligns in the following genomic locations:
Alignment LocationAlignment Score
v31.000207:46437..46988 +2760
Homology
[Close]
BLAST of SMED30005887 vs. Ensembl Human
Match: SNRPC (small nuclear ribonucleoprotein polypeptide C [Source:HGNC Symbol;Acc:HGNC:11157])

HSP 1 Score: 80.4925 bits (197), Expect = 6.468e-19
Identity = 31/58 (53.45%), Postives = 45/58 (77.59%), Query Frame = -3 
Query:  251 MPKYYCDYCDMFLTHDSPSVRKTHLEGKFHRDNYQNYYLNVLKEQAQKMVNEELSNFN 424
            MPK+YCDYCD +LTHDSPSVRKTH  G+ H++N ++YY   ++EQAQ ++++  + F 
Sbjct:    1 MPKFYCDYCDTYLTHDSPSVRKTHCSGRKHKENVKDYYQKWMEEQAQSLIDKTTAAFQ 58
[Close]
BLAST of SMED30005887 vs. Ensembl Human
Match: SNRPC (small nuclear ribonucleoprotein polypeptide C [Source:HGNC Symbol;Acc:HGNC:11157])

HSP 1 Score: 75.8702 bits (185), Expect = 6.640e-17
Identity = 29/64 (45.31%), Postives = 47/64 (73.44%), Query Frame = -3 
Query:  254 FLLYVLTMPKYYCDYCDMFLTHDSPSVRKTHLEGKFHRDNYQNYYLNVLKEQAQKMVNEELSNF 445
              L++  + ++YCDYCD +LTHDSPSVRKTH  G+ H++N ++YY   ++EQAQ ++++  + F
Sbjct:   15 LFLFLSPLFRFYCDYCDTYLTHDSPSVRKTHCSGRKHKENVKDYYQKWMEEQAQSLIDKTTAAF 78
[Close]
BLAST of SMED30005887 vs. Ensembl Celegans
Match: F08B4.7 (U1 small nuclear ribonucleoprotein C [Source:UniProtKB/Swiss-Prot;Acc:P90815])

HSP 1 Score: 81.6481 bits (200), Expect = 6.414e-20
Identity = 34/57 (59.65%), Postives = 44/57 (77.19%), Query Frame = -3 
Query:  254 MPKYYCDYCDMFLTHDSPSVRKTHLEGKFHRDNYQNYYLNVLKEQAQKMVNEELSNF 424
            MPKYYCDYCD FLTHDSPSVRKTH  G+ H+DN + +Y   +++QAQK+V++    F
Sbjct:    1 MPKYYCDYCDTFLTHDSPSVRKTHNGGRKHKDNVRMFYQKWMEDQAQKLVDQTARAF 57
[Close]
BLAST of SMED30005887 vs. Ensembl Fly
Match: snRNP-U1-C (gene:FBgn0261792 transcript:FBtr0083720)

HSP 1 Score: 82.4185 bits (202), Expect = 3.614e-20
Identity = 35/64 (54.69%), Postives = 45/64 (70.31%), Query Frame = -3 
Query:  233 MPKYYCDYCDMFLTHDSPSVRKTHLEGKFHRDNYQNYYLNVLKEQAQKMVNEELSNFNHQLLMN 424
            MPKYYCDYCD +LTHDSPSVRKTH  G+ HRDN + YY   ++EQAQ +++   + F    + N
Sbjct:    1 MPKYYCDYCDTYLTHDSPSVRKTHCTGRKHRDNVKFYYQKWMEEQAQHLIDATTAAFKAGKITN 64
[Close]
BLAST of SMED30005887 vs. Ensembl Zebrafish
Match: snrpc (small nuclear ribonucleoprotein polypeptide C [Source:NCBI gene;Acc:192330])

HSP 1 Score: 80.4925 bits (197), Expect = 3.986e-19
Identity = 31/58 (53.45%), Postives = 45/58 (77.59%), Query Frame = -3 
Query:  251 MPKYYCDYCDMFLTHDSPSVRKTHLEGKFHRDNYQNYYLNVLKEQAQKMVNEELSNFN 424
            MPK+YCDYCD +LTHDSPSVRKTH  G+ H++N ++YY   ++EQAQ ++++  + F 
Sbjct:    1 MPKFYCDYCDTYLTHDSPSVRKTHCSGRKHKENVKDYYQKWMEEQAQSLIDKTTAAFQ 58
[Close]
BLAST of SMED30005887 vs. Ensembl Xenopus
Match: snrpc (small nuclear ribonucleoprotein polypeptide C [Source:NCBI gene;Acc:549352])

HSP 1 Score: 81.6481 bits (200), Expect = 4.269e-19
Identity = 31/61 (50.82%), Postives = 46/61 (75.41%), Query Frame = -3 
Query:  251 VLTMPKYYCDYCDMFLTHDSPSVRKTHLEGKFHRDNYQNYYLNVLKEQAQKMVNEELSNFN 433
            +  MPK+YCDYCD +LTHDSPSVRKTH  G+ H++N ++YY   ++EQAQ ++++  + F 
Sbjct:   38 IRIMPKFYCDYCDTYLTHDSPSVRKTHCSGRKHKENVKDYYQKWMEEQAQSLIDKTTAAFQ 98
[Close]
BLAST of SMED30005887 vs. Ensembl Mouse
Match: Snrpc (U1 small nuclear ribonucleoprotein C [Source:MGI Symbol;Acc:MGI:109489])

HSP 1 Score: 80.1073 bits (196), Expect = 5.855e-19
Identity = 31/58 (53.45%), Postives = 45/58 (77.59%), Query Frame = -3 
Query:  251 MPKYYCDYCDMFLTHDSPSVRKTHLEGKFHRDNYQNYYLNVLKEQAQKMVNEELSNFN 424
            MPK+YCDYCD +LTHDSPSVRKTH  G+ H++N ++YY   ++EQAQ ++++  + F 
Sbjct:    1 MPKFYCDYCDTYLTHDSPSVRKTHCSGRKHKENVKDYYQKWMEEQAQSLIDKTTAAFQ 58
[Close]
BLAST of SMED30005887 vs. Ensembl Mouse
Match: Snrpc (U1 small nuclear ribonucleoprotein C [Source:MGI Symbol;Acc:MGI:109489])

HSP 1 Score: 80.1073 bits (196), Expect = 5.855e-19
Identity = 31/58 (53.45%), Postives = 45/58 (77.59%), Query Frame = -3 
Query:  251 MPKYYCDYCDMFLTHDSPSVRKTHLEGKFHRDNYQNYYLNVLKEQAQKMVNEELSNFN 424
            MPK+YCDYCD +LTHDSPSVRKTH  G+ H++N ++YY   ++EQAQ ++++  + F 
Sbjct:    1 MPKFYCDYCDTYLTHDSPSVRKTHCSGRKHKENVKDYYQKWMEEQAQSLIDKTTAAFQ 58
[Close]
BLAST of SMED30005887 vs. Ensembl Mouse
Match: Snrpc (U1 small nuclear ribonucleoprotein C [Source:MGI Symbol;Acc:MGI:109489])

HSP 1 Score: 74.7146 bits (182), Expect = 1.090e-16
Identity = 28/55 (50.91%), Postives = 42/55 (76.36%), Query Frame = -3 
Query:  251 YYCDYCDMFLTHDSPSVRKTHLEGKFHRDNYQNYYLNVLKEQAQKMVNEELSNFN 415
            +YCDYCD +LTHDSPSVRKTH  G+ H++N ++YY   ++EQAQ ++++  + F 
Sbjct:   27 FYCDYCDTYLTHDSPSVRKTHCSGRKHKENVKDYYQKWMEEQAQSLIDKTTAAFQ 81
[Close]
BLAST of SMED30005887 vs. Ensembl Mouse
Match: Snrpc (U1 small nuclear ribonucleoprotein C [Source:MGI Symbol;Acc:MGI:109489])

HSP 1 Score: 45.8246 bits (107), Expect = 4.546e-6
Identity = 17/41 (41.46%), Postives = 29/41 (70.73%), Query Frame = -3 
Query:  251 PSVRKTHLEGKFHRDNYQNYYLNVLKEQAQKMVNEELSNFN 373
            PSVRKTH  G+ H++N ++YY   ++EQAQ ++++  + F 
Sbjct:   16 PSVRKTHCSGRKHKENVKDYYQKWMEEQAQSLIDKTTAAFQ 56
[Close]
BLAST of SMED30005887 vs. UniProt/SwissProt
Match: sp|E0VI98|RU1C_PEDHC (U1 small nuclear ribonucleoprotein C OS=Pediculus humanus subsp. corporis OX=121224 GN=PHUM222080 PE=3 SV=1)

HSP 1 Score: 87.4261 bits (215), Expect = 1.065e-20
Identity = 36/68 (52.94%), Postives = 48/68 (70.59%), Query Frame = -3 
Query:  221 MPKYYCDYCDMFLTHDSPSVRKTHLEGKFHRDNYQNYYLNVLKEQAQKMVNEELSNFNHQLLMNPVTP 424
            MPKYYCDYCD +LTHDSPSVRKTH +G+ H+DN + YY   ++EQAQ +++   + F    + NP  P
Sbjct:    1 MPKYYCDYCDTYLTHDSPSVRKTHCQGRKHKDNVKFYYQKWMEEQAQHLIDATTAAFKAGKIANPFAP 68
[Close]
BLAST of SMED30005887 vs. UniProt/SwissProt
Match: sp|Q298E0|RU1C_DROPS (U1 small nuclear ribonucleoprotein C OS=Drosophila pseudoobscura pseudoobscura OX=46245 GN=snRNP-U1-C PE=3 SV=1)

HSP 1 Score: 83.9593 bits (206), Expect = 8.873e-20
Identity = 35/64 (54.69%), Postives = 45/64 (70.31%), Query Frame = -3 
Query:  233 MPKYYCDYCDMFLTHDSPSVRKTHLEGKFHRDNYQNYYLNVLKEQAQKMVNEELSNFNHQLLMN 424
            MPKYYCDYCD +LTHDSPSVRKTH  G+ HRDN + YY   ++EQAQ +++   + F    + N
Sbjct:    1 MPKYYCDYCDTYLTHDSPSVRKTHCTGRKHRDNVKFYYQKWMEEQAQHLIDATTAAFKAGKITN 64
[Close]
BLAST of SMED30005887 vs. UniProt/SwissProt
Match: sp|Q9VE17|RU1C_DROME (U1 small nuclear ribonucleoprotein C OS=Drosophila melanogaster OX=7227 GN=snRNP-U1-C PE=1 SV=1)

HSP 1 Score: 82.4185 bits (202), Expect = 3.623e-19
Identity = 35/64 (54.69%), Postives = 45/64 (70.31%), Query Frame = -3 
Query:  233 MPKYYCDYCDMFLTHDSPSVRKTHLEGKFHRDNYQNYYLNVLKEQAQKMVNEELSNFNHQLLMN 424
            MPKYYCDYCD +LTHDSPSVRKTH  G+ HRDN + YY   ++EQAQ +++   + F    + N
Sbjct:    1 MPKYYCDYCDTYLTHDSPSVRKTHCTGRKHRDNVKFYYQKWMEEQAQHLIDATTAAFKAGKITN 64
[Close]
BLAST of SMED30005887 vs. UniProt/SwissProt
Match: sp|Q7PXU6|RU1C_ANOGA (U1 small nuclear ribonucleoprotein C OS=Anopheles gambiae OX=7165 GN=AGAP001584 PE=3 SV=2)

HSP 1 Score: 82.8037 bits (203), Expect = 3.825e-19
Identity = 43/108 (39.81%), Postives = 62/108 (57.41%), Query Frame = -3 
Query:  119 MPKYYCDYCDMFLTHDSPSVRKTHLEGKFHRDNYQNYYLNVLKEQAQKMVNEELSNFN-HQLLMNPVT-----PMCSLPFSSQVNGATYVKQVQKLETTLPALISGTN 424
            MPKYYCDYCD +LTHDSPSVRKTH  G+ H+DN + YY   ++EQAQ +++   + +   ++  NP T     P  S+P  + +N       +  +    P L+ G N
Sbjct:    1 MPKYYCDYCDTYLTHDSPSVRKTHCTGRKHKDNVKFYYQKWMEEQAQHLIDATTAAYKAGKIAPNPFTAGPPKPNISIPPPT-MNMPPRPGMIPGMPAGAPPLLMGPN 107
[Close]
BLAST of SMED30005887 vs. UniProt/SwissProt
Match: sp|E3X5D6|RU1C_ANODA (U1 small nuclear ribonucleoprotein C OS=Anopheles darlingi OX=43151 GN=AND_004369 PE=3 SV=1)

HSP 1 Score: 82.4185 bits (202), Expect = 4.670e-19
Identity = 43/108 (39.81%), Postives = 62/108 (57.41%), Query Frame = -3 
Query:  119 MPKYYCDYCDMFLTHDSPSVRKTHLEGKFHRDNYQNYYLNVLKEQAQKMVNEELSNFN-HQLLMNPVT-----PMCSLPFSSQVNGATYVKQVQKLETTLPALISGTN 424
            MPKYYCDYCD +LTHDSPSVRKTH  G+ H+DN + YY   ++EQAQ +++   + +   ++  NP T     P  S+P  + +N       +  +    P L+ G N
Sbjct:    1 MPKYYCDYCDTYLTHDSPSVRKTHCTGRKHKDNVKFYYQKWMEEQAQHLIDATTAAYKAGKIAQNPFTAGPPKPNISIPPPT-MNMPPRPGIIPGMPAGAPPLLMGPN 107
[Close]
BLAST of SMED30005887 vs. TrEMBL
Match: A0A0A9YYS8 (U1 small nuclear ribonucleoprotein C OS=Lygus hesperus OX=30085 GN=PHUM222080 PE=3 SV=1)

HSP 1 Score: 87.0409 bits (214), Expect = 3.192e-18
Identity = 37/81 (45.68%), Postives = 52/81 (64.20%), Query Frame = -3 
Query:  182 MPKYYCDYCDMFLTHDSPSVRKTHLEGKFHRDNYQNYYLNVLKEQAQKMVNEELSNFNHQLLMNPVTPMCSLPFSSQVNGA 424
            MPKYYCDYCD +LTHDSPSVRKTH +G+ H+DN + YY   ++EQAQ +++   + F    +  P     ++P    + GA
Sbjct:    1 MPKYYCDYCDTYLTHDSPSVRKTHCQGRKHKDNVKFYYQKWMEEQAQHLIDATTAAFKAGKIAQPKVGGVAIPPPIGLGGA 81
[Close]
BLAST of SMED30005887 vs. TrEMBL
Match: A0A3B3R9W9 (U1 small nuclear ribonucleoprotein C OS=Paramormyrops kingsleyae OX=1676925 GN=SNRPC (1 of many) PE=3 SV=1)

HSP 1 Score: 86.6557 bits (213), Expect = 4.418e-18
Identity = 39/81 (48.15%), Postives = 55/81 (67.90%), Query Frame = -3 
Query:  182 MPKYYCDYCDMFLTHDSPSVRKTHLEGKFHRDNYQNYYLNVLKEQAQKMVNEELSNFNHQLLMNPVTPMCSLPFSSQVNGA 424
            MPK+YCDYCD +LTHDSPSVRKTH  G+ H++N ++YY   ++EQAQ ++++  + F  QL   P TP    P ++   GA
Sbjct:    1 MPKFYCDYCDTYLTHDSPSVRKTHCSGRKHKENVKDYYKKWMEEQAQSLIDKTTTAF--QLGKIPATP---FPGAAPPGGA 76
[Close]
BLAST of SMED30005887 vs. TrEMBL
Match: A0A077Z4Z1 (Zf-U1 domain containing protein OS=Trichuris trichiura OX=36087 GN=TTRE_0000297801 PE=3 SV=1)

HSP 1 Score: 84.7297 bits (208), Expect = 4.501e-18
Identity = 40/82 (48.78%), Postives = 52/82 (63.41%), Query Frame = -3 
Query:  179 MPKYYCDYCDMFLTHDSPSVRKTHLEGKFHRDNYQNYYLNVLKEQAQKMVNEELSNFNHQLLMNPVTPMCSLPFSSQVNGAT 424
            MPKY+CDYCD FLTHD+PSVRKTH  G+ HR+N + YY   L+EQAQK+V+     F    +M     M   P +  + GA+
Sbjct:    1 MPKYFCDYCDTFLTHDTPSVRKTHNSGRKHRENVRMYYQQWLEEQAQKLVDATARAFRESNVMRNPVGMMPPPGAMLIPGAS 82
[Close]
BLAST of SMED30005887 vs. TrEMBL
Match: R7VCT2 (U1 small nuclear ribonucleoprotein C OS=Capitella teleta OX=283909 GN=CAPTEDRAFT_227784 PE=3 SV=1)

HSP 1 Score: 85.5001 bits (210), Expect = 8.400e-18
Identity = 35/64 (54.69%), Postives = 47/64 (73.44%), Query Frame = -3 
Query:  233 MPKYYCDYCDMFLTHDSPSVRKTHLEGKFHRDNYQNYYLNVLKEQAQKMVNEELSNFNHQLLMN 424
            MPKY+CDYCD FLTHDSPSVRKTH  G+ H+DN ++YY   L++Q QK+V++  + F    + N
Sbjct:    1 MPKYFCDYCDTFLTHDSPSVRKTHCNGRKHKDNVRDYYQKWLEDQVQKLVDDTTAAFKAGKIQN 64
[Close]
BLAST of SMED30005887 vs. TrEMBL
Match: A0A1I8BHM2 (U1 small nuclear ribonucleoprotein C OS=Meloidogyne hapla OX=6305 PE=3 SV=1)

HSP 1 Score: 85.8853 bits (211), Expect = 1.009e-17
Identity = 35/63 (55.56%), Postives = 47/63 (74.60%), Query Frame = -3 
Query:  236 MPKYYCDYCDMFLTHDSPSVRKTHLEGKFHRDNYQNYYLNVLKEQAQKMVNEELSNFNHQLLM 424
            MPKYYCDYCD FLTHDSPSVRKTH  G+ H++N +++Y   ++EQAQK+++     F  Q +M
Sbjct:    1 MPKYYCDYCDAFLTHDSPSVRKTHNSGRKHKENVRHFYQAWMEEQAQKLIDATTKAFTTQRMM 63
[Close]
BLAST of SMED30005887 vs. Ensembl Cavefish
Match: snrpc (small nuclear ribonucleoprotein polypeptide C [Source:NCBI gene;Acc:111193750])

HSP 1 Score: 80.4925 bits (197), Expect = 5.259e-19
Identity = 31/64 (48.44%), Postives = 47/64 (73.44%), Query Frame = -3 
Query:  251 LLYVLTMPKYYCDYCDMFLTHDSPSVRKTHLEGKFHRDNYQNYYLNVLKEQAQKMVNEELSNFN 442
            +   + MPK+YCDYCD +LTHDSPSVRKTH  G+ H++N ++YY   ++EQAQ ++++  + F 
Sbjct:   18 VCVCVKMPKFYCDYCDTYLTHDSPSVRKTHCSGRKHKENVKDYYQKWMEEQAQSLIDKTTAAFQ 81
[Close]
BLAST of SMED30005887 vs. Ensembl Cavefish
Match: snrpc (small nuclear ribonucleoprotein polypeptide C [Source:NCBI gene;Acc:111193750])

HSP 1 Score: 77.411 bits (189), Expect = 3.444e-18
Identity = 30/52 (57.69%), Postives = 43/52 (82.69%), Query Frame = -3 
Query:  269 MPKYYCDYCDMFLTHDSPSVRKTHLEGKFHRDNYQNYYLNVLKEQAQKMVNE 424
            MPK+YCDYCD +LTHDSPSVRKTH  G+ H++N ++YY   ++EQAQ ++++
Sbjct:    1 MPKFYCDYCDTYLTHDSPSVRKTHCSGRKHKENVKDYYQKWMEEQAQSLIDK 52
[Close]
BLAST of SMED30005887 vs. Ensembl Sea Lamprey
Match: snrpc (small nuclear ribonucleoprotein polypeptide C [Source:NCBI gene;Acc:192330])

HSP 1 Score: 82.4185 bits (202), Expect = 1.158e-20
Identity = 32/57 (56.14%), Postives = 45/57 (78.95%), Query Frame = -3 
Query:  254 MPKYYCDYCDMFLTHDSPSVRKTHLEGKFHRDNYQNYYLNVLKEQAQKMVNEELSNF 424
            MPKYYCDYCD +LTHDSPSVRKTH  G+ H++N ++YY   ++EQAQ ++++  + F
Sbjct:    1 MPKYYCDYCDTYLTHDSPSVRKTHCGGRKHKENVKDYYQKWMEEQAQNLIDQTTAAF 57
[Close]
BLAST of SMED30005887 vs. Ensembl Yeast
Match: YHC1 (Component of the U1 snRNP complex required for pre-mRNA splicing; putative ortholog of human U1C protein, which is involved in formation of a complex between U1 snRNP and the pre-mRNA 5' splice site [Source:SGD;Acc:S000004289])

HSP 1 Score: 50.8322 bits (120), Expect = 1.507e-8
Identity = 24/52 (46.15%), Postives = 35/52 (67.31%), Query Frame = -3 
Query:  269 MPKYYCDYCDMFLTHDSPSVRKTHLEGKFHRDNYQNYYLNVLKEQAQKMVNE 424
            M +YYC+YC  +LTHD+ SVRK+HL GK H     +YY N    +A+ ++N+
Sbjct:    1 MTRYYCEYCHSYLTHDTLSVRKSHLVGKNHLRITADYYRN----KARDIINK 48
[Close]
BLAST of SMED30005887 vs. Ensembl Nematostella
Match: EDO37851 (U1 small nuclear ribonucleoprotein C [Source:UniProtKB/Swiss-Prot;Acc:A7SEP9])

HSP 1 Score: 78.9518 bits (193), Expect = 2.587e-19
Identity = 33/57 (57.89%), Postives = 44/57 (77.19%), Query Frame = -3 
Query:  254 MPKYYCDYCDMFLTHDSPSVRKTHLEGKFHRDNYQNYYLNVLKEQAQKMVNEELSNF 424
            MPKYYCDYCD FLTHDSPSVRKTH  G+ H++N + YY   ++EQAQ ++++  + F
Sbjct:    1 MPKYYCDYCDTFLTHDSPSVRKTHNNGRKHKENVRFYYQKWMEEQAQTLIDQTTAAF 57
[Close]
BLAST of SMED30005887 vs. Ensembl Medaka
Match: snrpc (small nuclear ribonucleoprotein polypeptide C [Source:NCBI gene;Acc:101158847])

HSP 1 Score: 80.1073 bits (196), Expect = 3.769e-19
Identity = 31/58 (53.45%), Postives = 45/58 (77.59%), Query Frame = -3 
Query:  251 MPKYYCDYCDMFLTHDSPSVRKTHLEGKFHRDNYQNYYLNVLKEQAQKMVNEELSNFN 424
            MPK+YCDYCD +LTHDSPSVRKTH  G+ H++N ++YY   ++EQAQ ++++  + F 
Sbjct:    1 MPKFYCDYCDTYLTHDSPSVRKTHCSGRKHKENVKDYYQKWMEEQAQSLIDKTTAAFQ 58
[Close]
BLAST of SMED30005887 vs. Ensembl Medaka
Match: snrpc (small nuclear ribonucleoprotein polypeptide C [Source:NCBI gene;Acc:101158847])

HSP 1 Score: 76.2554 bits (186), Expect = 1.244e-17
Identity = 29/65 (44.62%), Postives = 46/65 (70.77%), Query Frame = -3 
Query:  251 FLLYVLTMPKYYCDYCDMFLTHDSPSVRKTHLEGKFHRDNYQNYYLNVLKEQAQKMVNEELSNFN 445
            F  +  ++ ++YCDYCD +LTHDSPSVRKTH  G+ H++N ++YY   ++EQAQ ++++    F 
Sbjct:    9 FTWFFFSLDRFYCDYCDTYLTHDSPSVRKTHCSGRKHKENVKDYYQKWMEEQAQSLIDKTSKTFG 73
[Close]
BLAST of SMED30005887 vs. Ensembl Medaka
Match: snrpc (small nuclear ribonucleoprotein polypeptide C [Source:NCBI gene;Acc:101158847])

HSP 1 Score: 75.485 bits (184), Expect = 9.422e-17
Identity = 28/54 (51.85%), Postives = 42/54 (77.78%), Query Frame = -3 
Query:  254 YYCDYCDMFLTHDSPSVRKTHLEGKFHRDNYQNYYLNVLKEQAQKMVNEELSNF 415
            +YCDYCD +LTHDSPSVRKTH  G+ H++N ++YY   ++EQAQ ++++  + F
Sbjct:   86 FYCDYCDTYLTHDSPSVRKTHCSGRKHKENVKDYYQKWMEEQAQSLIDKTTAAF 139
[Close]
BLAST of SMED30005887 vs. Planmine SMEST
Match: SMESG000041687.1 (SMESG000041687.1)

HSP 1 Score: 259.225 bits (661), Expect = 4.445e-90
Identity = 124/124 (100.00%), Postives = 124/124 (100.00%), Query Frame = -3 
Query:   53 MPKYYCDYCDMFLTHDSPSVRKTHLEGKFHRDNYQNYYLNVLKEQAQKMVNEELSNFNHQLLMNPVTPMCSLPFSSQVNGATYVKQVQKLETTLPALISGTNFFNQVPMMDATMQPPPQNFMYT 424
            MPKYYCDYCDMFLTHDSPSVRKTHLEGKFHRDNYQNYYLNVLKEQAQKMVNEELSNFNHQLLMNPVTPMCSLPFSSQVNGATYVKQVQKLETTLPALISGTNFFNQVPMMDATMQPPPQNFMYT
Sbjct:    1 MPKYYCDYCDMFLTHDSPSVRKTHLEGKFHRDNYQNYYLNVLKEQAQKMVNEELSNFNHQLLMNPVTPMCSLPFSSQVNGATYVKQVQKLETTLPALISGTNFFNQVPMMDATMQPPPQNFMYT 124
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BLAST of SMED30005887 vs. Planmine SMEST
Match: SMESG000005764.1 (SMESG000005764.1)

HSP 1 Score: 225.713 bits (574), Expect = 1.324e-76
Identity = 108/127 (85.04%), Postives = 115/127 (90.55%), Query Frame = -3 
Query:   59 MPKYYCDYCDMFLTHDSPSVRKTHLEGKFHRDNYQNYYLNVLKEQAQKMVNEELSNFNHQLLMNPVTPMCSLPFSSQVNGATYVKQVQKLETTLPALISGTNFFNQVPMMDATMQP-----PPQNFM 424
            MPKYYCDYCDMFLTHDSPSVRKTHLEGKFHR+NYQNYYL VLKEQAQKMVNEEL+NFNHQLLMNPV PM S+P+SSQVNGATYVKQVQKLETTLPALI+GTNF NQV +MD TMQP     PPQN +
Sbjct:    1 MPKYYCDYCDMFLTHDSPSVRKTHLEGKFHRENYQNYYLKVLKEQAQKMVNEELANFNHQLLMNPVAPMMSVPYSSQVNGATYVKQVQKLETTLPALINGTNFINQVSIMDPTMQPTAVVQPPQNLI 127
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BLAST of SMED30005887 vs. Planmine SMEST
Match: SMESG000005764.1 (SMESG000005764.1)

HSP 1 Score: 124.02 bits (310), Expect = 3.155e-37
Identity = 62/79 (78.48%), Postives = 68/79 (86.08%), Query Frame = -3 
Query:   59 MVNEELSNFNHQLLMNPVTPMCSLPFSSQVNGATYVKQVQKLETTLPALISGTNFFNQVPMMDATMQP-----PPQNFM 280
            MVNEEL+NFNHQLLMNPV PM S+P+SSQVNGATYVKQVQKLETTLPALI+GTNF NQV +MD TMQP     PPQN +
Sbjct:    1 MVNEELANFNHQLLMNPVAPMMSVPYSSQVNGATYVKQVQKLETTLPALINGTNFINQVSIMDPTMQPTAVVQPPQNLI 79
[Close]
BLAST of SMED30005887 vs. Planmine SMEST
Match: SMESG000005764.1 (SMESG000005764.1)

HSP 1 Score: 97.4413 bits (241), Expect = 5.985e-27
Identity = 49/65 (75.38%), Postives = 54/65 (83.08%), Query Frame = -3 
Query:   59 MNPVTPMCSLPFSSQVNGATYVKQVQKLETTLPALISGTNFFNQVPMMDATMQP-----PPQNFM 238
            MNPV PM S+P+SSQVNGATYVKQVQKLETTLPALI+GTNF NQV +MD TMQP     PPQN +
Sbjct:    1 MNPVAPMMSVPYSSQVNGATYVKQVQKLETTLPALINGTNFINQVSIMDPTMQPTAVVQPPQNLI 65
[Close]
BLAST of SMED30005887 vs. Planmine SMEST
Match: SMESG000010972.1 (SMESG000010972.1)

HSP 1 Score: 85.5001 bits (210), Expect = 2.949e-21
Identity = 37/72 (51.39%), Postives = 49/72 (68.06%), Query Frame = -3 
Query:  206 KYYCDYCDMFLTHDSPSVRKTHLEGKFHRDNYQNYYLNVLKEQAQKMVNEELSNFNH-QLLMNPVTPMCSLP 418
            +YYCDYCD FLTHDSPSVRKTH  G+FHRDN + YY   L++Q QK+V++   +F   ++   P+     LP
Sbjct:   20 RYYCDYCDTFLTHDSPSVRKTHCGGRFHRDNVRKYYQEWLEQQVQKLVDQTTESFKQGRIPGGPIRAPLGLP 91
The following BLAST results are available for this feature:
BLAST of SMED30005887 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99)
Total hits: 2
Match NameE-valueIdentityDescription
SNRPC6.468e-1953.45small nuclear ribonucleoprotein polypeptide C [Sou... [more]
SNRPC6.640e-1745.31small nuclear ribonucleoprotein polypeptide C [Sou... [more]
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BLAST of SMED30005887 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99)
Total hits: 1
Match NameE-valueIdentityDescription
F08B4.76.414e-2059.65U1 small nuclear ribonucleoprotein C [Source:UniP... [more]
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BLAST of SMED30005887 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99)
Total hits: 1
Match NameE-valueIdentityDescription
snRNP-U1-C3.614e-2054.69gene:FBgn0261792 transcript:FBtr0083720[more]
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BLAST of SMED30005887 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99)
Total hits: 1
Match NameE-valueIdentityDescription
snrpc3.986e-1953.45small nuclear ribonucleoprotein polypeptide C [Sou... [more]
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BLAST of SMED30005887 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99)
Total hits: 1
Match NameE-valueIdentityDescription
snrpc4.269e-1950.82small nuclear ribonucleoprotein polypeptide C [Sou... [more]
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BLAST of SMED30005887 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99)
Total hits: 4
Match NameE-valueIdentityDescription
Snrpc5.855e-1953.45U1 small nuclear ribonucleoprotein C [Source:MGI S... [more]
Snrpc5.855e-1953.45U1 small nuclear ribonucleoprotein C [Source:MGI S... [more]
Snrpc1.090e-1650.91U1 small nuclear ribonucleoprotein C [Source:MGI S... [more]
Snrpc4.546e-641.46U1 small nuclear ribonucleoprotein C [Source:MGI S... [more]
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BLAST of SMED30005887 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt)
Total hits: 5
Match NameE-valueIdentityDescription
sp|E0VI98|RU1C_PEDHC1.065e-2052.94U1 small nuclear ribonucleoprotein C OS=Pediculus ... [more]
sp|Q298E0|RU1C_DROPS8.873e-2054.69U1 small nuclear ribonucleoprotein C OS=Drosophila... [more]
sp|Q9VE17|RU1C_DROME3.623e-1954.69U1 small nuclear ribonucleoprotein C OS=Drosophila... [more]
sp|Q7PXU6|RU1C_ANOGA3.825e-1939.81U1 small nuclear ribonucleoprotein C OS=Anopheles ... [more]
sp|E3X5D6|RU1C_ANODA4.670e-1939.81U1 small nuclear ribonucleoprotein C OS=Anopheles ... [more]
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BLAST of SMED30005887 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
A0A0A9YYS83.192e-1845.68U1 small nuclear ribonucleoprotein C OS=Lygus hesp... [more]
A0A3B3R9W94.418e-1848.15U1 small nuclear ribonucleoprotein C OS=Paramormyr... [more]
A0A077Z4Z14.501e-1848.78Zf-U1 domain containing protein OS=Trichuris trich... [more]
R7VCT28.400e-1854.69U1 small nuclear ribonucleoprotein C OS=Capitella ... [more]
A0A1I8BHM21.009e-1755.56U1 small nuclear ribonucleoprotein C OS=Meloidogyn... [more]
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BLAST of SMED30005887 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99)
Total hits: 2
Match NameE-valueIdentityDescription
snrpc5.259e-1948.44small nuclear ribonucleoprotein polypeptide C [Sou... [more]
snrpc3.444e-1857.69small nuclear ribonucleoprotein polypeptide C [Sou... [more]
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BLAST of SMED30005887 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99)
Total hits: 1
Match NameE-valueIdentityDescription
snrpc1.158e-2056.14small nuclear ribonucleoprotein polypeptide C [Sou... [more]
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BLAST of SMED30005887 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46)
Total hits: 1
Match NameE-valueIdentityDescription
YHC11.507e-846.15Component of the U1 snRNP complex required for pre... [more]
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BLAST of SMED30005887 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46)
Total hits: 1
Match NameE-valueIdentityDescription
EDO378512.587e-1957.89U1 small nuclear ribonucleoprotein C [Source:UniP... [more]
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BLAST of SMED30005887 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99)
Total hits: 3
Match NameE-valueIdentityDescription
snrpc3.769e-1953.45small nuclear ribonucleoprotein polypeptide C [Sou... [more]
snrpc1.244e-1744.62small nuclear ribonucleoprotein polypeptide C [Sou... [more]
snrpc9.422e-1751.85small nuclear ribonucleoprotein polypeptide C [Sou... [more]
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BLAST of SMED30005887 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 5
Match NameE-valueIdentityDescription
SMESG000041687.14.445e-90100.00SMESG000041687.1[more]
SMESG000005764.11.324e-7685.04SMESG000005764.1[more]
SMESG000005764.13.155e-3778.48SMESG000005764.1[more]
SMESG000005764.15.985e-2775.38SMESG000005764.1[more]
SMESG000010972.12.949e-2151.39SMESG000010972.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30005887 ID=SMED30005887|Name=SMED30005887|organism=Schmidtea mediterranea sexual|type=transcript|length=552bp
ACGCCTTTTAATAATAAAAACAAGTAAAACAGCTTTATTTACAAAACATT
CAAGTATACATGAAATTTTGTGGTGGAGGCTGCATTGTCGCGTCCATCAT
AGGTACTTGATTAAAAAAGTTGGTACCACTGATCAAAGCAGGTAATGTTG
TTTCCAACTTTTGAACTTGTTTAACATAAGTTGCGCCATTCACTTGAGAA
GAAAATGGTAGACTACACATTGGTGTTACGGGATTCATAAGCAATTGATG
ATTAAAATTAGATAGTTCTTCATTAACCATTTTTTGAGCTTGCTCCTTTA
ACACATTTAAATAATAATTCTGATAATTATCCCGGTGGAATTTACCTTCT
AAATGAGTTTTTCTCACAGATGGTGAATCATGAGTTAAAAACATATCGCA
ATAATCACAATAATACTTAGGCATTGTTAGAACGTACAACAAAAATTAAT
AAACAATTACAATTCTTAAGAACAGTGAAAATTTAAATAAAAAAATGAAT
CAATTATTATACAAACAAAGTTGCTCAACAAATATTGAATTCACTTAAAC
AG
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protein sequence of SMED30005887-orf-1

>SMED30005887-orf-1 ID=SMED30005887-orf-1|Name=SMED30005887-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=125bp
MPKYYCDYCDMFLTHDSPSVRKTHLEGKFHRDNYQNYYLNVLKEQAQKMV
NEELSNFNHQLLMNPVTPMCSLPFSSQVNGATYVKQVQKLETTLPALISG
TNFFNQVPMMDATMQPPPQNFMYT*
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000099neuron
PLANA:0002089reproductive organ
Vocabulary: INTERPRO
TermDefinition
IPR036236Znf_C2H2_sf
IPR003604Matrin/U1-like-C_Znf_C2H2
IPR013085U1-CZ_Znf_C2H2
IPR017340U1_snRNP-C
IPR000690Matrin/U1-C_Znf_C2H2
Vocabulary: molecular function
TermDefinition
GO:0008270zinc ion binding
GO:0003676nucleic acid binding
Vocabulary: biological process
TermDefinition
GO:0000398mRNA splicing, via spliceosome
GO:0000387spliceosomal snRNP assembly
Vocabulary: cellular component
TermDefinition
GO:0005685U1 snRNP
GO:0005634nucleus
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR003604Matrin/U1-C-like, C2H2-type zinc fingerSMARTSM00451ZnF_U1_5coord: 1..37
e-value: 3.3E-11
score: 53.2
IPR017340U1 small nuclear ribonucleoprotein CPIRSFPIRSF037969U1-Ccoord: 1..124
e-value: 8.0E-28
score: 96.4
IPR017340U1 small nuclear ribonucleoprotein CPANTHERPTHR31148FAMILY NOT NAMEDcoord: 1..117
IPR013085U1-C, C2H2-type zinc fingerPFAMPF06220zf-U1coord: 1..38
e-value: 2.2E-19
score: 68.9
NoneNo IPR availableGENE3DG3DSA:3.30.160.60coord: 1..60
e-value: 9.7E-26
score: 91.6
IPR000690Matrin/U1-C, C2H2-type zinc fingerPROSITEPS50171ZF_MATRINcoord: 4..36
score: 12.164
IPR036236Zinc finger C2H2 superfamilySUPERFAMILYSSF57667beta-beta-alpha zinc fingerscoord: 1..53