U1 small nuclear ribonucleoprotein C

Overview
NameU1 small nuclear ribonucleoprotein C
Smed IDSMED30021048
Length (bp)555
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 U1 small nuclear ribonucleoprotein C (SMED30021048) t-SNE clustered cells

Violin plots show distribution of expression levels for U1 small nuclear ribonucleoprotein C (SMED30021048) 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 U1 small nuclear ribonucleoprotein C (SMED30021048) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for U1 small nuclear ribonucleoprotein C (SMED30021048) 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



SMED30021048

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



PAGE Curations: 8

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
X1 cellSMED30021048SMESG000005768.1 SmedASXL_081921SmedAsxl_ww_GCZZ01PMID:26114597
Zhu et al., 2015		FACS sorted cell population asexual adult RNA-sequencing evidence
epidermisSMED30021048SMESG000005768.1 dd_Smed_v4_10739_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
cephalic gangliaSMED30021048SMESG000005768.1 dd_Smed_v4_10739_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
neoblastSMED30021048SMESG000005768.1 dd_Smed_v4_10739_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
tail regionSMED30021048SMESG000005768.1 dd_Smed_v6_10739_0_1dd_Smed_v6PMID:28171748
Stückemann et al., 2017		whole organism asexual adult RNA-sequencing evidence
gutSMED30021048SMESG000005768.1 SMED30021048smed_20140614PMID:26457503
Tu et al., 2015		whole organism asexual adult colorimetric in situ hybridization evidence
parenchymaSMED30021048SMESG000005768.1 SMED30021048smed_20140614PMID:26457503
Tu et al., 2015		whole organism asexual adult colorimetric in situ hybridization evidence
zeta neoblastSMED30021048SMESG000005768.1 dd_Smed_v4_10739_0_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017		whole organism asexual adult single-cell RNA-sequencing evidence
Note: Hover over icons to view figure legend
Homology
[Close]
BLAST of U1 small nuclear ribonucleoprotein C vs. Ensembl Human
Match: SNRPC (small nuclear ribonucleoprotein polypeptide C [Source:HGNC Symbol;Acc:HGNC:11157])

HSP 1 Score: 50.8322 bits (120), Expect = 9.163e-8
Identity = 19/42 (45.24%), Postives = 28/42 (66.67%), Query Frame = 3 
Query:   42 MARYYCDYCDIYLNSNSLNCRKLHNNSDIHIKNVRLYYARWL 167
            M ++YCDYCD YL  +S + RK H +   H +NV+ YY +W+
Sbjct:    1 MPKFYCDYCDTYLTHDSPSVRKTHCSGRKHKENVKDYYQKWM 42
[Close]
BLAST of U1 small nuclear ribonucleoprotein C vs. Ensembl Human
Match: SNRPC (small nuclear ribonucleoprotein polypeptide C [Source:HGNC Symbol;Acc:HGNC:11157])

HSP 1 Score: 48.521 bits (114), Expect = 7.551e-7
Identity = 19/40 (47.50%), Postives = 27/40 (67.50%), Query Frame = 3 
Query:   48 RYYCDYCDIYLNSNSLNCRKLHNNSDIHIKNVRLYYARWL 167
            R+YCDYCD YL  +S + RK H +   H +NV+ YY +W+
Sbjct:   24 RFYCDYCDTYLTHDSPSVRKTHCSGRKHKENVKDYYQKWM 63
[Close]
BLAST of U1 small nuclear ribonucleoprotein C vs. Ensembl Celegans
Match: F08B4.7 (U1 small nuclear ribonucleoprotein C [Source:UniProtKB/Swiss-Prot;Acc:P90815])

HSP 1 Score: 57.3806 bits (137), Expect = 9.873e-11
Identity = 20/42 (47.62%), Postives = 28/42 (66.67%), Query Frame = 3 
Query:   42 MARYYCDYCDIYLNSNSLNCRKLHNNSDIHIKNVRLYYARWL 167
            M +YYCDYCD +L  +S + RK HN    H  NVR++Y +W+
Sbjct:    1 MPKYYCDYCDTFLTHDSPSVRKTHNGGRKHKDNVRMFYQKWM 42
[Close]
BLAST of U1 small nuclear ribonucleoprotein C vs. Ensembl Fly
Match: snRNP-U1-C (gene:FBgn0261792 transcript:FBtr0083720)

HSP 1 Score: 51.6026 bits (122), Expect = 1.779e-8
Identity = 20/42 (47.62%), Postives = 26/42 (61.90%), Query Frame = 3 
Query:   42 MARYYCDYCDIYLNSNSLNCRKLHNNSDIHIKNVRLYYARWL 167
            M +YYCDYCD YL  +S + RK H     H  NV+ YY +W+
Sbjct:    1 MPKYYCDYCDTYLTHDSPSVRKTHCTGRKHRDNVKFYYQKWM 42
[Close]
BLAST of U1 small nuclear ribonucleoprotein C vs. Ensembl Zebrafish
Match: snrpc (small nuclear ribonucleoprotein polypeptide C [Source:NCBI gene;Acc:192330])

HSP 1 Score: 51.2174 bits (121), Expect = 4.810e-8
Identity = 19/42 (45.24%), Postives = 28/42 (66.67%), Query Frame = 3 
Query:   42 MARYYCDYCDIYLNSNSLNCRKLHNNSDIHIKNVRLYYARWL 167
            M ++YCDYCD YL  +S + RK H +   H +NV+ YY +W+
Sbjct:    1 MPKFYCDYCDTYLTHDSPSVRKTHCSGRKHKENVKDYYQKWM 42
[Close]
BLAST of U1 small nuclear ribonucleoprotein C vs. Ensembl Xenopus
Match: snrpc (small nuclear ribonucleoprotein polypeptide C [Source:NCBI gene;Acc:549352])

HSP 1 Score: 49.6766 bits (117), Expect = 3.445e-7
Identity = 19/42 (45.24%), Postives = 28/42 (66.67%), Query Frame = 3 
Query:   42 MARYYCDYCDIYLNSNSLNCRKLHNNSDIHIKNVRLYYARWL 167
            M ++YCDYCD YL  +S + RK H +   H +NV+ YY +W+
Sbjct:   41 MPKFYCDYCDTYLTHDSPSVRKTHCSGRKHKENVKDYYQKWM 82
[Close]
BLAST of U1 small nuclear ribonucleoprotein C vs. Ensembl Mouse
Match: Snrpc (U1 small nuclear ribonucleoprotein C [Source:MGI Symbol;Acc:MGI:109489])

HSP 1 Score: 50.447 bits (119), Expect = 7.857e-8
Identity = 19/42 (45.24%), Postives = 28/42 (66.67%), Query Frame = 3 
Query:   42 MARYYCDYCDIYLNSNSLNCRKLHNNSDIHIKNVRLYYARWL 167
            M ++YCDYCD YL  +S + RK H +   H +NV+ YY +W+
Sbjct:    1 MPKFYCDYCDTYLTHDSPSVRKTHCSGRKHKENVKDYYQKWM 42
[Close]
BLAST of U1 small nuclear ribonucleoprotein C vs. Ensembl Mouse
Match: Snrpc (U1 small nuclear ribonucleoprotein C [Source:MGI Symbol;Acc:MGI:109489])

HSP 1 Score: 50.447 bits (119), Expect = 7.857e-8
Identity = 19/42 (45.24%), Postives = 28/42 (66.67%), Query Frame = 3 
Query:   42 MARYYCDYCDIYLNSNSLNCRKLHNNSDIHIKNVRLYYARWL 167
            M ++YCDYCD YL  +S + RK H +   H +NV+ YY +W+
Sbjct:    1 MPKFYCDYCDTYLTHDSPSVRKTHCSGRKHKENVKDYYQKWM 42
[Close]
BLAST of U1 small nuclear ribonucleoprotein C vs. Ensembl Mouse
Match: Snrpc (U1 small nuclear ribonucleoprotein C [Source:MGI Symbol;Acc:MGI:109489])

HSP 1 Score: 46.9802 bits (110), Expect = 1.900e-6
Identity = 18/39 (46.15%), Postives = 26/39 (66.67%), Query Frame = 3 
Query:   51 YYCDYCDIYLNSNSLNCRKLHNNSDIHIKNVRLYYARWL 167
            +YCDYCD YL  +S + RK H +   H +NV+ YY +W+
Sbjct:   27 FYCDYCDTYLTHDSPSVRKTHCSGRKHKENVKDYYQKWM 65
[Close]
BLAST of U1 small nuclear ribonucleoprotein C vs. UniProt/SwissProt
Match: sp|A7SEP9|RU1C_NEMVE (U1 small nuclear ribonucleoprotein C OS=Nematostella vectensis OX=45351 GN=v1g244745 PE=3 SV=1)

HSP 1 Score: 59.6918 bits (143), Expect = 1.501e-10
Identity = 22/42 (52.38%), Postives = 29/42 (69.05%), Query Frame = 3 
Query:   42 MARYYCDYCDIYLNSNSLNCRKLHNNSDIHIKNVRLYYARWL 167
            M +YYCDYCD +L  +S + RK HNN   H +NVR YY +W+
Sbjct:    1 MPKYYCDYCDTFLTHDSPSVRKTHNNGRKHKENVRFYYQKWM 42
[Close]
BLAST of U1 small nuclear ribonucleoprotein C vs. UniProt/SwissProt
Match: sp|Q5KC16|RU1C_CRYNJ (U1 small nuclear ribonucleoprotein C OS=Cryptococcus neoformans var. neoformans serotype D (strain JEC21 / ATCC MYA-565) OX=214684 GN=CNI00630 PE=3 SV=1)

HSP 1 Score: 59.6918 bits (143), Expect = 6.002e-10
Identity = 23/39 (58.97%), Postives = 29/39 (74.36%), Query Frame = 3 
Query:   42 MARYYCDYCDIYLNSNSLNCRKLHNNSDIHIKNVRLYYA 158
            M +YYCDYCDIYL  +S+N RK HN+   H+ NVR Y+A
Sbjct:    1 MGKYYCDYCDIYLTHDSMNARKAHNSGRNHVANVRDYFA 39
[Close]
BLAST of U1 small nuclear ribonucleoprotein C vs. UniProt/SwissProt
Match: sp|P90815|RU1C_CAEEL (U1 small nuclear ribonucleoprotein C OS=Caenorhabditis elegans OX=6239 GN=F08B4.7 PE=3 SV=1)

HSP 1 Score: 57.3806 bits (137), Expect = 1.256e-9
Identity = 20/42 (47.62%), Postives = 28/42 (66.67%), Query Frame = 3 
Query:   42 MARYYCDYCDIYLNSNSLNCRKLHNNSDIHIKNVRLYYARWL 167
            M +YYCDYCD +L  +S + RK HN    H  NVR++Y +W+
Sbjct:    1 MPKYYCDYCDTFLTHDSPSVRKTHNGGRKHKDNVRMFYQKWM 42
[Close]
BLAST of U1 small nuclear ribonucleoprotein C vs. UniProt/SwissProt
Match: sp|A8XW44|RU1C_CAEBR (U1 small nuclear ribonucleoprotein C OS=Caenorhabditis briggsae OX=6238 GN=CBG19656 PE=3 SV=1)

HSP 1 Score: 56.9954 bits (136), Expect = 1.767e-9
Identity = 20/42 (47.62%), Postives = 28/42 (66.67%), Query Frame = 3 
Query:   42 MARYYCDYCDIYLNSNSLNCRKLHNNSDIHIKNVRLYYARWL 167
            M +YYCDYCD +L  +S + RK HN    H  NVR++Y +W+
Sbjct:    1 MPKYYCDYCDTFLTHDSPSVRKTHNGGRKHKDNVRMFYQKWM 42
[Close]
BLAST of U1 small nuclear ribonucleoprotein C vs. UniProt/SwissProt
Match: sp|C3Z1P5|RU1C_BRAFL (U1 small nuclear ribonucleoprotein C OS=Branchiostoma floridae OX=7739 GN=BRAFLDRAFT_69314 PE=3 SV=1)

HSP 1 Score: 57.3806 bits (137), Expect = 3.547e-9
Identity = 21/42 (50.00%), Postives = 29/42 (69.05%), Query Frame = 3 
Query:   42 MARYYCDYCDIYLNSNSLNCRKLHNNSDIHIKNVRLYYARWL 167
            M +Y+CDYCD YL  +S + RK H N   H +NVR+YY +W+
Sbjct:    1 MPKYFCDYCDTYLTHDSPSVRKTHCNGRKHKENVRVYYQKWM 42
[Close]
BLAST of U1 small nuclear ribonucleoprotein C vs. TrEMBL
Match: A0A368GPL4 (U1 small nuclear ribonucleoprotein C OS=Ancylostoma caninum OX=29170 GN=ANCCAN_07615 PE=3 SV=1)

HSP 1 Score: 63.5438 bits (153), Expect = 2.200e-9
Identity = 22/43 (51.16%), Postives = 30/43 (69.77%), Query Frame = 3 
Query:   39 EMARYYCDYCDIYLNSNSLNCRKLHNNSDIHIKNVRLYYARWL 167
            EM +YYCDYCD +L  +S + RK HN    H +NVR++Y RW+
Sbjct:   12 EMPKYYCDYCDTFLTHDSPSVRKTHNGGRKHKENVRMFYQRWM 54
[Close]
BLAST of U1 small nuclear ribonucleoprotein C vs. TrEMBL
Match: A0A183GAX2 (U1 small nuclear ribonucleoprotein C OS=Heligmosomoides polygyrus OX=6339 GN=HPBE_LOCUS19205 PE=3 SV=1)

HSP 1 Score: 62.7734 bits (151), Expect = 4.704e-9
Identity = 24/50 (48.00%), Postives = 33/50 (66.00%), Query Frame = 3 
Query:   18 VLF**YVEMARYYCDYCDIYLNSNSLNCRKLHNNSDIHIKNVRLYYARWL 167
            +LF   V M +YYCDYCD +L  +S + RK HN    H +NVR++Y RW+
Sbjct:    8 LLFIAQVTMPKYYCDYCDTFLTHDSPSVRKTHNGGRKHKENVRMFYQRWM 57
[Close]
BLAST of U1 small nuclear ribonucleoprotein C vs. TrEMBL
Match: A0A0D6MAI2 (U1 small nuclear ribonucleoprotein C OS=Ancylostoma ceylanicum OX=53326 GN=ANCCEY_03910 PE=3 SV=1)

HSP 1 Score: 61.2326 bits (147), Expect = 1.022e-8
Identity = 21/42 (50.00%), Postives = 29/42 (69.05%), Query Frame = 3 
Query:   42 MARYYCDYCDIYLNSNSLNCRKLHNNSDIHIKNVRLYYARWL 167
            M +YYCDYCD +L  +S + RK HN    H +NVR++Y RW+
Sbjct:    1 MPKYYCDYCDTFLTHDSPSVRKTHNGGRKHKENVRMFYQRWM 42
[Close]
BLAST of U1 small nuclear ribonucleoprotein C vs. TrEMBL
Match: A0A0N4VTH2 (U1 small nuclear ribonucleoprotein C OS=Haemonchus placei OX=6290 GN=HPLM_LOCUS590 PE=3 SV=1)

HSP 1 Score: 60.8474 bits (146), Expect = 1.778e-8
Identity = 21/42 (50.00%), Postives = 29/42 (69.05%), Query Frame = 3 
Query:   42 MARYYCDYCDIYLNSNSLNCRKLHNNSDIHIKNVRLYYARWL 167
            M +YYCDYCD +L  +S + RK HN    H +NVR++Y RW+
Sbjct:    1 MPKYYCDYCDTFLTHDSPSVRKTHNGGRKHKENVRMFYQRWM 42
[Close]
BLAST of U1 small nuclear ribonucleoprotein C vs. TrEMBL
Match: A0A0N4Y3E1 (U1 small nuclear ribonucleoprotein C OS=Nippostrongylus brasiliensis OX=27835 GN=NBR_LOCUS10315 PE=3 SV=1)

HSP 1 Score: 60.4622 bits (145), Expect = 1.953e-8
Identity = 21/42 (50.00%), Postives = 29/42 (69.05%), Query Frame = 3 
Query:   42 MARYYCDYCDIYLNSNSLNCRKLHNNSDIHIKNVRLYYARWL 167
            M +YYCDYCD +L  +S + RK HN    H +NVR++Y RW+
Sbjct:    1 MPKYYCDYCDTFLTHDSPSVRKTHNGGRKHKENVRMFYQRWM 42
[Close]
BLAST of U1 small nuclear ribonucleoprotein C vs. Ensembl Cavefish
Match: snrpc (small nuclear ribonucleoprotein polypeptide C [Source:NCBI gene;Acc:111193750])

HSP 1 Score: 52.7582 bits (125), Expect = 1.483e-8
Identity = 20/44 (45.45%), Postives = 30/44 (68.18%), Query Frame = 3 
Query:   36 VEMARYYCDYCDIYLNSNSLNCRKLHNNSDIHIKNVRLYYARWL 167
            V+M ++YCDYCD YL  +S + RK H +   H +NV+ YY +W+
Sbjct:   22 VKMPKFYCDYCDTYLTHDSPSVRKTHCSGRKHKENVKDYYQKWM 65
[Close]
BLAST of U1 small nuclear ribonucleoprotein C vs. Ensembl Cavefish
Match: snrpc (small nuclear ribonucleoprotein polypeptide C [Source:NCBI gene;Acc:111193750])

HSP 1 Score: 50.447 bits (119), Expect = 5.120e-8
Identity = 21/55 (38.18%), Postives = 32/55 (58.18%), Query Frame = 3 
Query:   42 MARYYCDYCDIYLNSNSLNCRKLHNNSDIHIKNVRLYYARWLISTSLNAASIASK 206
            M ++YCDYCD YL  +S + RK H +   H +NV+ YY +W+   + +     SK
Sbjct:    1 MPKFYCDYCDTYLTHDSPSVRKTHCSGRKHKENVKDYYQKWMEEQAQSLIDKTSK 55
[Close]
BLAST of U1 small nuclear ribonucleoprotein C vs. Ensembl Sea Lamprey
Match: snrpc (small nuclear ribonucleoprotein polypeptide C [Source:NCBI gene;Acc:192330])

HSP 1 Score: 53.5286 bits (127), Expect = 1.003e-9
Identity = 21/48 (43.75%), Postives = 29/48 (60.42%), Query Frame = 3 
Query:   42 MARYYCDYCDIYLNSNSLNCRKLHNNSDIHIKNVRLYYARWLISTSLN 185
            M +YYCDYCD YL  +S + RK H     H +NV+ YY +W+   + N
Sbjct:    1 MPKYYCDYCDTYLTHDSPSVRKTHCGGRKHKENVKDYYQKWMEEQAQN 48
[Close]
BLAST of U1 small nuclear ribonucleoprotein C vs. Ensembl Nematostella
Match: EDO37851 (U1 small nuclear ribonucleoprotein C [Source:UniProtKB/Swiss-Prot;Acc:A7SEP9])

HSP 1 Score: 59.6918 bits (143), Expect = 6.153e-12
Identity = 22/42 (52.38%), Postives = 29/42 (69.05%), Query Frame = 3 
Query:   42 MARYYCDYCDIYLNSNSLNCRKLHNNSDIHIKNVRLYYARWL 167
            M +YYCDYCD +L  +S + RK HNN   H +NVR YY +W+
Sbjct:    1 MPKYYCDYCDTFLTHDSPSVRKTHNNGRKHKENVRFYYQKWM 42
[Close]
BLAST of U1 small nuclear ribonucleoprotein C vs. Ensembl Medaka
Match: snrpc (small nuclear ribonucleoprotein polypeptide C [Source:NCBI gene;Acc:101158847])

HSP 1 Score: 53.1434 bits (126), Expect = 7.655e-9
Identity = 32/127 (25.20%), Postives = 60/127 (47.24%), Query Frame = 3 
Query:   33 YVEMARYYCDYCDIYLNSNSLNCRKLHNNSDIHIKNVRLYYARWLISTSLNAASIASKXXXXXXXXXXXXXXS***LDKSIKLQRKALILFYLMVRRIRRSNEI*YNLKYMWIGNFFLNLHLFEEIL 413
            +  + R+YCDYCD YL  +S + RK H +   H +NV+ YY +W+   + +     SK                     S  ++  +  L +++    +++N I     + +IG+F + L++F+ IL
Sbjct:   13 FFSLDRFYCDYCDTYLTHDSPSVRKTHCSGRKHKENVKDYYQKWMEEQAQSLIDKTSKT-----------------FGLSCAIRTISFHLLFILSYLFKKNNNI-----FGFIGHFVMELNVFDHIL 117
[Close]
BLAST of U1 small nuclear ribonucleoprotein C vs. Ensembl Medaka
Match: snrpc (small nuclear ribonucleoprotein polypeptide C [Source:NCBI gene;Acc:101158847])

HSP 1 Score: 50.447 bits (119), Expect = 6.387e-8
Identity = 19/42 (45.24%), Postives = 28/42 (66.67%), Query Frame = 3 
Query:   42 MARYYCDYCDIYLNSNSLNCRKLHNNSDIHIKNVRLYYARWL 167
            M ++YCDYCD YL  +S + RK H +   H +NV+ YY +W+
Sbjct:    1 MPKFYCDYCDTYLTHDSPSVRKTHCSGRKHKENVKDYYQKWM 42
[Close]
BLAST of U1 small nuclear ribonucleoprotein C vs. Ensembl Medaka
Match: snrpc (small nuclear ribonucleoprotein polypeptide C [Source:NCBI gene;Acc:101158847])

HSP 1 Score: 47.3654 bits (111), Expect = 1.585e-6
Identity = 18/39 (46.15%), Postives = 26/39 (66.67%), Query Frame = 3 
Query:   51 YYCDYCDIYLNSNSLNCRKLHNNSDIHIKNVRLYYARWL 167
            +YCDYCD YL  +S + RK H +   H +NV+ YY +W+
Sbjct:   86 FYCDYCDTYLTHDSPSVRKTHCSGRKHKENVKDYYQKWM 124
[Close]
BLAST of U1 small nuclear ribonucleoprotein C vs. Planmine SMEST
Match: SMESG000010972.1 (SMESG000010972.1)

HSP 1 Score: 51.2174 bits (121), Expect = 2.817e-8
Identity = 21/40 (52.50%), Postives = 24/40 (60.00%), Query Frame = 3 
Query:   48 RYYCDYCDIYLNSNSLNCRKLHNNSDIHIKNVRLYYARWL 167
            RYYCDYCD +L  +S + RK H     H  NVR YY  WL
Sbjct:   20 RYYCDYCDTFLTHDSPSVRKTHCGGRFHRDNVRKYYQEWL 59
[Close]
BLAST of U1 small nuclear ribonucleoprotein C vs. Planmine SMEST
Match: SMESG000005764.1 (SMESG000005764.1)

HSP 1 Score: 44.2838 bits (103), Expect = 6.078e-6
Identity = 18/42 (42.86%), Postives = 26/42 (61.90%), Query Frame = 3 
Query:   42 MARYYCDYCDIYLNSNSLNCRKLHNNSDIHIKNVRLYYARWL 167
            M +YYCDYCD++L  +S + RK H     H +N + YY + L
Sbjct:    1 MPKYYCDYCDMFLTHDSPSVRKTHLEGKFHRENYQNYYLKVL 42
The following BLAST results are available for this feature:
BLAST of U1 small nuclear ribonucleoprotein C vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99)
Total hits: 2
Match NameE-valueIdentityDescription
SNRPC9.163e-845.24small nuclear ribonucleoprotein polypeptide C [Sou... [more]
SNRPC7.551e-747.50small nuclear ribonucleoprotein polypeptide C [Sou... [more]
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BLAST of U1 small nuclear ribonucleoprotein C vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99)
Total hits: 1
Match NameE-valueIdentityDescription
F08B4.79.873e-1147.62U1 small nuclear ribonucleoprotein C [Source:UniP... [more]
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BLAST of U1 small nuclear ribonucleoprotein C vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99)
Total hits: 1
Match NameE-valueIdentityDescription
snRNP-U1-C1.779e-847.62gene:FBgn0261792 transcript:FBtr0083720[more]
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BLAST of U1 small nuclear ribonucleoprotein C vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99)
Total hits: 1
Match NameE-valueIdentityDescription
snrpc4.810e-845.24small nuclear ribonucleoprotein polypeptide C [Sou... [more]
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BLAST of U1 small nuclear ribonucleoprotein C vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99)
Total hits: 1
Match NameE-valueIdentityDescription
snrpc3.445e-745.24small nuclear ribonucleoprotein polypeptide C [Sou... [more]
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BLAST of U1 small nuclear ribonucleoprotein C vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99)
Total hits: 3
Match NameE-valueIdentityDescription
Snrpc7.857e-845.24U1 small nuclear ribonucleoprotein C [Source:MGI S... [more]
Snrpc7.857e-845.24U1 small nuclear ribonucleoprotein C [Source:MGI S... [more]
Snrpc1.900e-646.15U1 small nuclear ribonucleoprotein C [Source:MGI S... [more]
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BLAST of U1 small nuclear ribonucleoprotein C vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt)
Total hits: 5
Match NameE-valueIdentityDescription
sp|A7SEP9|RU1C_NEMVE1.501e-1052.38U1 small nuclear ribonucleoprotein C OS=Nematostel... [more]
sp|Q5KC16|RU1C_CRYNJ6.002e-1058.97U1 small nuclear ribonucleoprotein C OS=Cryptococc... [more]
sp|P90815|RU1C_CAEEL1.256e-947.62U1 small nuclear ribonucleoprotein C OS=Caenorhabd... [more]
sp|A8XW44|RU1C_CAEBR1.767e-947.62U1 small nuclear ribonucleoprotein C OS=Caenorhabd... [more]
sp|C3Z1P5|RU1C_BRAFL3.547e-950.00U1 small nuclear ribonucleoprotein C OS=Branchiost... [more]
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BLAST of U1 small nuclear ribonucleoprotein C vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
A0A368GPL42.200e-951.16U1 small nuclear ribonucleoprotein C OS=Ancylostom... [more]
A0A183GAX24.704e-948.00U1 small nuclear ribonucleoprotein C OS=Heligmosom... [more]
A0A0D6MAI21.022e-850.00U1 small nuclear ribonucleoprotein C OS=Ancylostom... [more]
A0A0N4VTH21.778e-850.00U1 small nuclear ribonucleoprotein C OS=Haemonchus... [more]
A0A0N4Y3E11.953e-850.00U1 small nuclear ribonucleoprotein C OS=Nippostron... [more]
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BLAST of U1 small nuclear ribonucleoprotein C vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99)
Total hits: 2
Match NameE-valueIdentityDescription
snrpc1.483e-845.45small nuclear ribonucleoprotein polypeptide C [Sou... [more]
snrpc5.120e-838.18small nuclear ribonucleoprotein polypeptide C [Sou... [more]
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BLAST of U1 small nuclear ribonucleoprotein C vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99)
Total hits: 1
Match NameE-valueIdentityDescription
snrpc1.003e-943.75small nuclear ribonucleoprotein polypeptide C [Sou... [more]
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BLAST of U1 small nuclear ribonucleoprotein C vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of U1 small nuclear ribonucleoprotein C vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46)
Total hits: 1
Match NameE-valueIdentityDescription
EDO378516.153e-1252.38U1 small nuclear ribonucleoprotein C [Source:UniP... [more]
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BLAST of U1 small nuclear ribonucleoprotein C vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99)
Total hits: 3
Match NameE-valueIdentityDescription
snrpc7.655e-925.20small nuclear ribonucleoprotein polypeptide C [Sou... [more]
snrpc6.387e-845.24small nuclear ribonucleoprotein polypeptide C [Sou... [more]
snrpc1.585e-646.15small nuclear ribonucleoprotein polypeptide C [Sou... [more]
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BLAST of U1 small nuclear ribonucleoprotein C vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 2
Match NameE-valueIdentityDescription
SMESG000010972.12.817e-852.50SMESG000010972.1[more]
SMESG000005764.16.078e-642.86SMESG000005764.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30021048 ID=SMED30021048|Name=U1 small nuclear ribonucleoprotein C|organism=Schmidtea mediterranea sexual|type=transcript|length=555bp
GACTTAAATGTTTAAAAGTGTTGTTTTAATAATATGTTGAAATGGCGAGA
TATTACTGTGATTATTGTGATATCTATCTGAATTCTAATTCATTGAACTG
TAGAAAACTTCACAATAATAGCGATATTCATATTAAAAATGTTAGACTGT
ACTATGCACGGTGGTTGATATCGACATCTTTAAATGCAGCTTCTATAGCA
TCGAAGAATTGTAATTTTTTTTCGAATTTCTTTCTTTTTCAGAATAACAG
TTAATAATAATTGGACAAGTCAATAAAATTACAGAGGAAAGCATTAATTT
TATTTTACCTTATGGTTCGAAGAATTAGAAGATCGAATGAAATTTAATAT
AATTTAAAATATATGTGGATTGGTAACTTTTTCTTAAATTTACATTTATT
TGAAGAAATTTTAAGCTAATGGTGCATGAATTTATTTTATAAATTGTAAA
GGCTAGTTTTATATTATTGGTAAAATGTGTAAGTATGATAGTCTAAAAGA
CTAAATGAATTTTATTTTGTATGAATATTTTTTGACTTCAGTAAAAATTT
ATTTT
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: molecular function
TermDefinition
GO:0003729mRNA binding
GO:0030619U1 snRNA binding
GO:0003676nucleic acid binding
GO:0008270zinc ion binding
GO:0003723RNA binding
GO:0030627pre-mRNA 5'-splice site binding
GO:0046872metal ion binding
Vocabulary: cellular component
TermDefinition
GO:0071004U2-type prespliceosome
GO:0005634nucleus
GO:0000243commitment complex
GO:0005685U1 snRNP
GO:0030529intracellular ribonucleoprotein complex
GO:0071010prespliceosome
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000014zeta neoblast
PLANA:0000026gut
PLANA:0000421tail
PLANA:0000429neoblast
PLANA:0002109X1 cell
PLANA:0002142parenchyma
Vocabulary: INTERPRO
TermDefinition
IPR017340U1_snRNP-C
IPR036236Znf_C2H2_sf
IPR003604Matrin/U1-like-C_Znf_C2H2
IPR013085U1-CZ_Znf_C2H2
IPR000690Matrin/U1-C_Znf_C2H2
Vocabulary: biological process
TermDefinition
GO:0000387spliceosomal snRNP assembly
GO:0000395mRNA 5'-splice site recognition
GO:0000398mRNA splicing, via spliceosome
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: 1.2E-4
score: 31.4
IPR013085U1-C, C2H2-type zinc fingerPFAMPF06220zf-U1coord: 1..38
e-value: 2.7E-13
score: 49.4
NoneNo IPR availableGENE3DG3DSA:3.30.160.60coord: 1..60
e-value: 3.0E-16
score: 61.3
NoneNo IPR availablePANTHERPTHR31148:SF1U1 SMALL NUCLEAR RIBONUCLEOPROTEIN Ccoord: 1..45
IPR017340U1 small nuclear ribonucleoprotein CPANTHERPTHR31148FAMILY NOT NAMEDcoord: 1..45
IPR000690Matrin/U1-C, C2H2-type zinc fingerPROSITEPS50171ZF_MATRINcoord: 4..36
score: 9.629
IPR036236Zinc finger C2H2 superfamilySUPERFAMILYSSF57667beta-beta-alpha zinc fingerscoord: 1..59