SMED30009071
Overview
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 progeniesWe 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
Sub-lethal Irradiated Surviving X1 and X2 Cell Population
Embryonic Expression
Davies et. al., 2017
Hover the mouse over a column in the graph to view average RPKM values per sample. Embryonic Stages: Y: yolk. S2-S8: Stages 2-8. C4: asexual adult. SX: virgin, sexually mature adult. back to top Anatomical Expression
PAGE et. al., 2020SMED30009071 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 8
Alignments
SMED30009071 aligns in the following genomic locations:
Homology
BLAST of SMED30009071 vs. TrEMBL
Match: W4ZH54 (Uncharacterized protein OS=Strongylocentrotus purpuratus OX=7668 PE=4 SV=1) HSP 1 Score: 68.1662 bits (165), Expect = 1.931e-8 Identity = 60/221 (27.15%), Postives = 98/221 (44.34%), Query Frame = 2 Query: 164 HEQLLHDYFGAEVADSFLHPVMDTSVGVAGMSAXXXXXXXXXXXXXXXXXXTYDQALSKLT--SNAERLWKILRENSIYNIEKEDKRIPEDLKMSFDSFARSCINRNMTPPERSFVENNELKEMEKIVKNRKIEKSDLARRKKQLMFNLSRVQEGNQKILMREKSFLGDTDMGFGTKELFFPPILDGVPDHFSVHKDIEHRKPHEKSYHKML---ADLEVE 811 H+Q L++ FG E A+ +LHP ++ ++R I A+ +L + A LW LR+ S ++ D RIP +LK ++ +F R C+ +N T +RSF E+ E EK+ N ++ +R+ +LM+ + E +L+ F E P L +P V D E +KSY K L +D+E+E Sbjct: 258 HKQRLYNLFGQEEAEYYLHPRIEP---------------------ERRKVIRIPNAVKQLGGRAGAHTLWSTLRDRSQVKLKYADARIPLELKDAYGAFVRECLTKNKTVAKRSFYSETEVPESEKLQDNSYKDRVKETQRRMELMYRAALANEDKTGVLLYNNPM-----PDFNNFEGHEGP-LRYLPSWLQVDDDSEEGTEEDKSYKKWLLSSSDMEIE 451
BLAST of SMED30009071 vs. TrEMBL
Match: A0A2G8L4Q9 (Putative ankyrin repeat domain-containing protein 11-like OS=Stichopus japonicus OX=307972 GN=BSL78_07850 PE=4 SV=1) HSP 1 Score: 63.1586 bits (152), Expect = 4.983e-7 Identity = 89/385 (23.12%), Postives = 149/385 (38.70%), Query Frame = 2 Query: 155 LLHHEQLLHDYFGAEVADSFLHP-VMDTSVGVAGMSAXXXXXXXXXXXXXXXXXXTYDQALSKLTSNAERLWKILRENSIYNIEKEDKRIPEDLKMSFDSFARSCINRNMTPPERSFVENNELKEMEKIVKNRKIEKSDLARRKKQLMFNLSRVQEGNQKILMREKSFLGDTDM-GFGTKELFFPPILDGVPDHFSVHKDIE-HRKPHEKSYHKMLADLEVEVVNEDALFQSNSKPSYPGLRFFTEQDSHKVLKSKR----EFMSNLDSKSKDMLMENIIDKSRRWAEDDRIRSGA----------SFEYVVPSKGKIER--------SKSQKDLSKMKPENV--KQWQPLTLGAVMDFKIAKKPTFLDEHTQFFRQGSVKLWRP 1228 L H+Q L+ FG E A+ LHP +M V + ++ + + A+ LW +LR + +E+ D +IP +LK ++ ++ R + R F +L E++ +R E R + +LM+ S E +L+ D+ G E + P +DG ++E R E+ Y K L LE E+ Q SK S R ++ ++ +S R F++ ++S+ N RR E A + Y VP + +R S+SQ ++ + ++WQPLTL A+ D +PT T+ FR G W+P Sbjct: 55 LPPHKQELYRLFGPEEAECILHPKIMPEKKRVIQVPTALRNQGGR--------------------AGADPLWHLLRSKTHLKLEQADSQIPAELKQAYSAYIREYLTHTKPASRRQFYTERDLPPSERMEDSRYHEHIREIRHRMELMYRSSLANEDKTSVLLHNNPMPDFNDLNGSDGIERYHPSWVDG---------EVEDSRSEDEQDYRKWLPPLETSKSPEEPEPQPRSKSSDELQRMDPQKKGNRGHRSHRGQKLSFLTEEKARSEGQFWRN-----RRNPEIPEPSVPAYMIMAEALDDNVYYHVPEMSQDDRQENVLRRQSRSQNSTTRESKSSASHRKWQPLTLSALGDH----RPTVDLPGTRDFRFGQPMTWKP 401
BLAST of SMED30009071 vs. TrEMBL
Match: K1S1I0 (Uncharacterized protein OS=Crassostrea gigas OX=29159 GN=CGI_10026551 PE=4 SV=1) HSP 1 Score: 62.7734 bits (151), Expect = 7.631e-7 Identity = 93/419 (22.20%), Postives = 176/419 (42.00%), Query Frame = 2 Query: 68 NFESLSHGPISSLEEVDENEAFSTESKPTLLHHEQLLHDYFGAEVADSFLHPVMDTSVGVAGMSAXXXXXXXXXXXXXXXXXXTYDQALSKLTSNAERLWKILRENSIYNIEKEDKRIPEDLKMSFDSFARSCINRNMTPPERSFVENNELKEMEKIVKNRKIEKSDLARRKKQLMFNLSRVQEGNQKILMR-----EKSFLGDTDM-GFGTKELFFPPILD----GVPDHF-------SVHKDIEHR--KPHEKSYHKMLADLEVEVVNEDALFQSNSKPSYPGLRFFTEQDSHKVLKSKREFMSNLDSKSKDMLMENIIDKSRRWAEDDRIRSGASFEYVVPSKGKIERSKSQKDL--------SKMKPEN-------VKQWQPLTLGAVMDFKIAKKPTFLDEHTQFFRQGSVKLW 1222 N +S P ++ E +D + ++S L H++ L+ G + AD FLHP ++ V +++ + + + ++D +L + + +RL K LR+ S + K D IP++LK +F +F R + ++ P R F ++ E+ ++ + K + + + LM+ SR E IL+ E + L DTD G G + P +D PD+ + H+D+ + K ++ + K DL E ++ + Q + + H+ + K FM D+ K + D + D R + + P+K K + +DL S PE + QW+PL++ A++++ K+ + E + QG K+W Sbjct: 228 NLSPVSRTPTNT-ELLDRDPSWSMPEGEKLQWHQKQLYQVLG-KGADYFLHPKIEKK-AVKPINSKLRKEGGKRRKRESSEM-SFD-SLGR--AGVDRLLKTLRDESQIRLLKADAHIPQELKDTFGAFVRESVGKDRPPVRRFFCPQEDVPELARLQDHSKTARVRHYKHRVDLMYRASRNNEDRTNILIHNNPPPEVASL-DTDQDGVGR---YLPSWMDDRAESEPDYMKWVKEGGNTHRDLTSQPIKEDDEDWQKPEEDLGGEGFTDEVILQMSRR-------------KHRHPQPKYIFMKEEDTNVKGTFTDKFRDM---YDNADIPRPFNATKLPTPTKSKSVLGLTTEDLVEDRTSCQSAPVPERHRRYYDYISQWEPLSMNALIEYTQKKEAEGVGE----YNQGRPKMW 615
BLAST of SMED30009071 vs. TrEMBL
Match: A0A1W5BCD0 (testis-specific gene 13 protein isoform X2 OS=Ciona intestinalis OX=7719 GN=LOC100185515 PE=4 SV=1) HSP 1 Score: 62.003 bits (149), Expect = 9.878e-7 Identity = 41/159 (25.79%), Postives = 79/159 (49.69%), Query Frame = 2 Query: 164 HEQLLHDYFGAEVADSFLHPVMDTSVGVAGMSAXXXXXXXXXXXXXXXXXXTYDQALSKLTSNAERLWKILRENSIYNIEKEDKRIPEDLKMSFDSFARSCINRNMTPPERSFVENNELKEMEKIVKNRKIEKSDLARRKKQLMFNLSRVQEGNQKILM 640 H Q+L++ GA+ A+S L+P M+ ++++ ++ D + A+ LWKIL++ S ++ D RIP + K+S+ +F R +N+N + RSF + ++ E++K++ R E+ AR +MF S + +L+ Sbjct: 67 HHQVLYELLGADKAESILNPKMEEPA---------KNNEEISEMKHRKRLPAVDTGV-----GADALWKILKKESDRKLQSMDNRIPTEWKVSYGAFLRDSLNQNRSIVHRSFTHHVDVPELDKLMDKRYRERVRKARHHTNVMFRASENNKNKTTLLL 211
BLAST of SMED30009071 vs. TrEMBL
Match: A0A1W2WHU0 (uncharacterized protein LOC100185515 isoform X1 OS=Ciona intestinalis OX=7719 GN=LOC100185515 PE=4 SV=1) HSP 1 Score: 62.003 bits (149), Expect = 1.233e-6 Identity = 41/160 (25.62%), Postives = 79/160 (49.38%), Query Frame = 2 Query: 161 HHEQLLHDYFGAEVADSFLHPVMDTSVGVAGMSAXXXXXXXXXXXXXXXXXXTYDQALSKLTSNAERLWKILRENSIYNIEKEDKRIPEDLKMSFDSFARSCINRNMTPPERSFVENNELKEMEKIVKNRKIEKSDLARRKKQLMFNLSRVQEGNQKILM 640 H Q+L++ GA+ A+S L+P M+ ++++ ++ D + A+ LWKIL++ S ++ D RIP + K+S+ +F R +N+N + RSF + ++ E++K++ R E+ AR +MF S + +L+ Sbjct: 100 QHHQVLYELLGADKAESILNPKMEEPA---------KNNEEISEMKHRKRLPAVDTGV-----GADALWKILKKESDRKLQSMDNRIPTEWKVSYGAFLRDSLNQNRSIVHRSFTHHVDVPELDKLMDKRYRERVRKARHHTNVMFRASENNKNKTTLLL 245
BLAST of SMED30009071 vs. Ensembl Nematostella
Match: EDO48134 (Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7RKA4]) HSP 1 Score: 49.6766 bits (117), Expect = 1.555e-6 Identity = 28/99 (28.28%), Postives = 56/99 (56.57%), Query Frame = 2 Query: 350 NAERLWKILRENSIYNIEKEDKRIPEDLKMSFDSFARSCINRNMTPPERSFVENNELKEME-KIVKNRKIEKSDLARRKKQLMFNLSRVQEGNQKILMR 643 A LW +LR S +EK++ IP +LK ++ SF R C++ N+ ERSF++ N+ + E ++ ++ I+ A + LM+ ++ + + ++L + Sbjct: 86 GAHDLWGLLRGKSQKKLEKQEDSIPTELKNAYRSFLRECVHANIPVFERSFIDRNKERIPEDQLSESHLIKDIHFALHRLDLMYRVAHMNKDKTRLLFK 184 HSP 2 Score: 49.6766 bits (117), Expect = 1.569e-6 Identity = 28/99 (28.28%), Postives = 56/99 (56.57%), Query Frame = 2 Query: 350 NAERLWKILRENSIYNIEKEDKRIPEDLKMSFDSFARSCINRNMTPPERSFVENNELKEME-KIVKNRKIEKSDLARRKKQLMFNLSRVQEGNQKILMR 643 A LW +LR S +EK++ IP +LK ++ SF R C++ N+ ERSF++ N+ + E ++ ++ I+ A + LM+ ++ + + ++L + Sbjct: 455 GAHDLWGLLRGKSQKKLEKQEDSIPTELKNAYRSFLRECVHANIPVFERSFIDKNKERIPEDQLSESHLIKDIHFALHRLDLMYRVAHMNKDKTRLLFK 553
BLAST of SMED30009071 vs. Planmine SMEST
Match: SMESG000017123.1 (SMESG000017123.1) HSP 1 Score: 768.844 bits (1984), Expect = 0.000e+0 Identity = 395/395 (100.00%), Postives = 395/395 (100.00%), Query Frame = 2 Query: 59 MNDNFESLSHGPISSLEEVDENEAFSTESKPTLLHHEQLLHDYFGAEVADSFLHPVMDTSVGVAGMSAXXXXXXXXXXXXXXXXXXTYDQALSKLTSNAERLWKILRENSIYNIEKEDKRIPEDLKMSFDSFARSCINRNMTPPERSFVENNELKEMEKIVKNRKIEKSDLARRKKQLMFNLSRVQEGNQKILMREKSFLGDTDMGFGTKELFFPPILDGVPDHFSVHKDIEHRKPHEKSYHKMLADLEVEVVNEDALFQSNSKPSYPGLRFFTEQDSHKVLKSKREFMSNLDSKSKDMLMENIIDKSRRWAEDDRIRSGASFEYVVPSKGKIERSKSQKDLSKMKPENVKQWQPLTLGAVMDFKIAKKPTFLDEHTQFFRQGSVKLWRPKLTQV 1243 MNDNFESLSHGPISSLEEVDENEAFSTESKPTLLHHEQLLHDYFGAEVADSFLHPVMDTSVGVAGMSASISSHKKNKSSNKKRINITYDQALSKLTSNAERLWKILRENSIYNIEKEDKRIPEDLKMSFDSFARSCINRNMTPPERSFVENNELKEMEKIVKNRKIEKSDLARRKKQLMFNLSRVQEGNQKILMREKSFLGDTDMGFGTKELFFPPILDGVPDHFSVHKDIEHRKPHEKSYHKMLADLEVEVVNEDALFQSNSKPSYPGLRFFTEQDSHKVLKSKREFMSNLDSKSKDMLMENIIDKSRRWAEDDRIRSGASFEYVVPSKGKIERSKSQKDLSKMKPENVKQWQPLTLGAVMDFKIAKKPTFLDEHTQFFRQGSVKLWRPKLTQV Sbjct: 1 MNDNFESLSHGPISSLEEVDENEAFSTESKPTLLHHEQLLHDYFGAEVADSFLHPVMDTSVGVAGMSASISSHKKNKSSNKKRINITYDQALSKLTSNAERLWKILRENSIYNIEKEDKRIPEDLKMSFDSFARSCINRNMTPPERSFVENNELKEMEKIVKNRKIEKSDLARRKKQLMFNLSRVQEGNQKILMREKSFLGDTDMGFGTKELFFPPILDGVPDHFSVHKDIEHRKPHEKSYHKMLADLEVEVVNEDALFQSNSKPSYPGLRFFTEQDSHKVLKSKREFMSNLDSKSKDMLMENIIDKSRRWAEDDRIRSGASFEYVVPSKGKIERSKSQKDLSKMKPENVKQWQPLTLGAVMDFKIAKKPTFLDEHTQFFRQGSVKLWRPKLTQV 395 The following BLAST results are available for this feature:
BLAST of SMED30009071 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30009071 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30009071 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30009071 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30009071 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30009071 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30009071 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30009071 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 5
BLAST of SMED30009071 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30009071 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30009071 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30009071 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 1
BLAST of SMED30009071 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30009071 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 1
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30009071 ID=SMED30009071|Name=SMED30009071|organism=Schmidtea mediterranea sexual|type=transcript|length=1252bpback to top protein sequence of SMED30009071-orf-1 >SMED30009071-orf-1 ID=SMED30009071-orf-1|Name=SMED30009071-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=396bp MNDNFESLSHGPISSLEEVDENEAFSTESKPTLLHHEQLLHDYFGAEVADback to top Annotated Terms
The following terms have been associated with this transcript:
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
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