protein C10

Overview
Nameprotein C10
Smed IDSMED30005881
Length (bp)477
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 protein C10 (SMED30005881) t-SNE clustered cells

Violin plots show distribution of expression levels for protein C10 (SMED30005881) 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 protein C10 (SMED30005881) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for protein C10 (SMED30005881) 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.
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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



SMED30005881

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



PAGE Curations: 2

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
nervous systemSMED30005881SMESG000004188.1 dd_Smed_v4_4220_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
neoblastSMED30005881SMESG000004188.1 dd_Smed_v4_4220_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 protein C10 vs. Ensembl Fly
Match: CG15387 (gene:FBgn0031403 transcript:FBtr0113015)

HSP 1 Score: 53.5286 bits (127), Expect = 1.294e-9
Identity = 30/105 (28.57%), Postives = 65/105 (61.90%), Query Frame = 1 
Query:   73 NTEDLKEIIREILSKISSPEXXXXXXXXXXXXXXXSTVYHMKHIFPIVVDIQLEIVEKHGYNSPDGFGIVEFINDVRQKAKEDFELFELHKELKMVTMPDFTLIT 387
            N++  K+I+ +I+  ++ PE + KL+  KA+  K   +  M+H+FP+V+ +QLE+++ HG+   +  G+V+F   +R+  ++D E+  L  +++ + +P   + T
Sbjct:    8 NSDTAKQILMDIIRCVNQPENSKKLSEAKASAGK-EMILMMQHVFPLVMQLQLEVIKGHGFPG-NREGLVQFSQLIREMERDDMEIVRLRSQIRAIYLPPIAINT 110
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BLAST of protein C10 vs. TrEMBL
Match: E0VEZ6 (Uncharacterized protein OS=Pediculus humanus subsp. corporis OX=121224 GN=8239498 PE=4 SV=1)

HSP 1 Score: 56.225 bits (134), Expect = 3.533e-7
Identity = 38/102 (37.25%), Postives = 61/102 (59.80%), Query Frame = 1 
Query:   88 KEIIREILSKISSPEXXXXXXXXXXXXXXXSTVYHMKHIFPIVVDIQLEIVEKHGYNSPDGF-GIVEFINDVRQKAKEDFELFELHKELKMVTMPDFTLITE 390
            K I+ E++  I+ PE A KL   K        +  M+ +FPI+V IQ+E+++K+G+  PDG  G+V+F+  +R   +E+ E+ ELH ++K   MP   L TE
Sbjct:   13 KAILTEMIEAINIPENASKLEQAKTNAGN-DMIKMMQFVFPIMVQIQMEVIKKYGF--PDGRDGMVQFLQLIRNIERENKEVAELHGQIKTHLMPPVNLNTE 111
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BLAST of protein C10 vs. TrEMBL
Match: A0A3B0K457 (Blast:Protein C10 OS=Drosophila guanche OX=7266 GN=DGUA_6G012648 PE=4 SV=1)

HSP 1 Score: 56.225 bits (134), Expect = 3.651e-7
Identity = 32/105 (30.48%), Postives = 66/105 (62.86%), Query Frame = 1 
Query:   73 NTEDLKEIIREILSKISSPEXXXXXXXXXXXXXXXSTVYHMKHIFPIVVDIQLEIVEKHGYNSPDGFGIVEFINDVRQKAKEDFELFELHKELKMVTMPDFTLIT 387
            N E+ K+I+ +I+  ++ PE + KL+  KA+  K   +  M+H+FP+V+ +QLE+++ HG+ + +  G+V+F   VR+  ++D E+  L  +++ + +P   + T
Sbjct:    8 NNENAKQILMDIIRCVNQPENSKKLSQAKASAGK-EMLLMMQHVFPLVMQLQLEVIKGHGFPA-NREGLVQFSQLVREMERDDMEIARLRSQIRAIYLPPIAINT 110
[Close]
BLAST of protein C10 vs. TrEMBL
Match: B4I2G6 (GM18252 OS=Drosophila sechellia OX=7238 GN=Dsec\GM18252 PE=4 SV=1)

HSP 1 Score: 54.6842 bits (130), Expect = 1.162e-6
Identity = 31/105 (29.52%), Postives = 65/105 (61.90%), Query Frame = 1 
Query:   73 NTEDLKEIIREILSKISSPEXXXXXXXXXXXXXXXSTVYHMKHIFPIVVDIQLEIVEKHGYNSPDGFGIVEFINDVRQKAKEDFELFELHKELKMVTMPDFTLIT 387
            N+E  K+I+ +I+  ++ PE + KL+  KA+  K   +  M+H+FP+V+ +QLE+++ HG+   +  G+V+F   +R+  ++D E+  L  +++ + +P   + T
Sbjct:    8 NSETAKQILMDIIRCVNQPENSKKLSEAKASAGK-EMILMMQHVFPLVMQLQLEVIKGHGFPG-NREGLVQFSQLIREMERDDMEIVRLRSQIRAIYLPPIAINT 110
[Close]
BLAST of protein C10 vs. TrEMBL
Match: B3N9H6 (Uncharacterized protein OS=Drosophila erecta OX=7220 GN=Dere\GG24545 PE=4 SV=1)

HSP 1 Score: 54.6842 bits (130), Expect = 1.162e-6
Identity = 31/105 (29.52%), Postives = 65/105 (61.90%), Query Frame = 1 
Query:   73 NTEDLKEIIREILSKISSPEXXXXXXXXXXXXXXXSTVYHMKHIFPIVVDIQLEIVEKHGYNSPDGFGIVEFINDVRQKAKEDFELFELHKELKMVTMPDFTLIT 387
            N+E  K+I+ +I+  ++ PE + KL+  KA+  K   +  M+H+FP+V+ +QLE+++ HG+   +  G+V+F   +R+  ++D E+  L  +++ + +P   + T
Sbjct:    8 NSETAKQILMDIIRCVNQPENSKKLSEAKASAGK-EMILMMQHVFPLVMQLQLEVIKGHGFPG-NREGLVQFSQLIREMERDDMEIVRLRSQIRAIYLPPIAINT 110
[Close]
BLAST of protein C10 vs. TrEMBL
Match: B4NW69 (Uncharacterized protein OS=Drosophila yakuba OX=7245 GN=Dyak\GE15185 PE=4 SV=1)

HSP 1 Score: 54.6842 bits (130), Expect = 1.162e-6
Identity = 31/105 (29.52%), Postives = 65/105 (61.90%), Query Frame = 1 
Query:   73 NTEDLKEIIREILSKISSPEXXXXXXXXXXXXXXXSTVYHMKHIFPIVVDIQLEIVEKHGYNSPDGFGIVEFINDVRQKAKEDFELFELHKELKMVTMPDFTLIT 387
            N+E  K+I+ +I+  ++ PE + KL+  KA+  K   +  M+H+FP+V+ +QLE+++ HG+   +  G+V+F   +R+  ++D E+  L  +++ + +P   + T
Sbjct:    8 NSETAKQILMDIIRCVNQPENSKKLSEAKASAGK-EMILMMQHVFPLVMQLQLEVIKGHGFPG-NREGLVQFSQLIREMERDDMEIVRLRSQIRAIYLPPIAINT 110
[Close]
BLAST of protein C10 vs. Planmine SMEST
Match: SMESG000004188.1 (SMESG000004188.1)

HSP 1 Score: 195.282 bits (495), Expect = 2.964e-65
Identity = 113/113 (100.00%), Postives = 113/113 (100.00%), Query Frame = 1 
Query:   64 MTQNTEDLKEIIREILSKISSPEXXXXXXXXXXXXXXXSTVYHMKHIFPIVVDIQLEIVEKHGYNSPDGFGIVEFINDVRQKAKEDFELFELHKELKMVTMPDFTLITEKLNS 402
            MTQNTEDLKEIIREILSKISSPEVALKLNNLKAANVKNSTVYHMKHIFPIVVDIQLEIVEKHGYNSPDGFGIVEFINDVRQKAKEDFELFELHKELKMVTMPDFTLITEKLNS
Sbjct:    1 MTQNTEDLKEIIREILSKISSPEVALKLNNLKAANVKNSTVYHMKHIFPIVVDIQLEIVEKHGYNSPDGFGIVEFINDVRQKAKEDFELFELHKELKMVTMPDFTLITEKLNS 113
The following BLAST results are available for this feature:
BLAST of protein C10 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of protein C10 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of protein C10 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99)
Total hits: 1
Match NameE-valueIdentityDescription
CG153871.294e-928.57gene:FBgn0031403 transcript:FBtr0113015[more]
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BLAST of protein C10 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of protein C10 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of protein C10 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of protein C10 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of protein C10 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
E0VEZ63.533e-737.25Uncharacterized protein OS=Pediculus humanus subsp... [more]
A0A3B0K4573.651e-730.48Blast:Protein C10 OS=Drosophila guanche OX=7266 GN... [more]
B4I2G61.162e-629.52GM18252 OS=Drosophila sechellia OX=7238 GN=Dsec\GM... [more]
B3N9H61.162e-629.52Uncharacterized protein OS=Drosophila erecta OX=72... [more]
B4NW691.162e-629.52Uncharacterized protein OS=Drosophila yakuba OX=72... [more]
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BLAST of protein C10 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of protein C10 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of protein C10 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 protein C10 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of protein C10 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of protein C10 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 1
Match NameE-valueIdentityDescription
SMESG000004188.12.964e-65100.00SMESG000004188.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30005881 ID=SMED30005881|Name=protein C10|organism=Schmidtea mediterranea sexual|type=transcript|length=477bp
TTTAAACCTAGGAAGTTCATTCATTTGACTTTGTTTATATCAACTGTGCT
TAATTAAGGACAAATGACCCAAAATACTGAAGATTTAAAAGAAATTATTC
GGGAAATTTTGTCTAAAATCTCATCACCTGAAGTTGCTTTAAAACTTAAT
AATCTTAAAGCAGCCAATGTTAAGAATTCAACTGTTTATCACATGAAACA
TATATTTCCAATTGTGGTTGATATCCAATTGGAAATTGTTGAGAAGCATG
GATATAATTCACCAGATGGATTTGGTATTGTTGAATTTATTAATGACGTG
CGACAGAAAGCAAAAGAGGATTTTGAGTTGTTTGAACTTCACAAAGAACT
AAAAATGGTCACAATGCCGGATTTTACTCTGATAACTGAAAAGTTGAATT
CTTAATTTAATTATGATCTCAATAGATTGTGCTGTTTTTGTCATGAAATA
AATATTTATTGTTATCAGAAAAAAAAA
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protein sequence of SMED30005881-orf-1

>SMED30005881-orf-1 ID=SMED30005881-orf-1|Name=SMED30005881-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=114bp
MTQNTEDLKEIIREILSKISSPEVALKLNNLKAANVKNSTVYHMKHIFPI
VVDIQLEIVEKHGYNSPDGFGIVEFINDVRQKAKEDFELFELHKELKMVT
MPDFTLITEKLNS*
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000099neuron
Vocabulary: INTERPRO
TermDefinition
IPR026317P_C10
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR026317Protein C10PFAMPF14974P_C10coord: 5..105
e-value: 9.6E-21
score: 73.8
IPR026317Protein C10PANTHERPTHR13463FAMILY NOT NAMEDcoord: 4..107