SMED30017439
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., 2020SMED30017439 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 3
Homology
BLAST of SMED30017439 vs. Ensembl Fly
Match: conv (gene:FBgn0261269 transcript:FBtr0339967) HSP 1 Score: 51.2174 bits (121), Expect = 9.002e-6 Identity = 55/204 (26.96%), Postives = 101/204 (49.51%), Query Frame = 3 Query: 321 KSLKIDSPFLTNI-RNVITGYINTSRLETLTVTNGNISIFDISNL-ALPSLKTLSLPKNEIESF---LFPNSNILEILNISYNKITEWNPLNYPNLLTL---DLSHNDLNSFNFKT----ASLKFIYFSNAFSKNISSKFFQSTNNIEFMDLSKNYLSDI---SFLFVHNLNKLDLSFNKIQSLWSIELLTKSFTDLTINLSEN 887 K L ID + +++ G + L + VTNGN+S I L LKTL L N++E+ F N LE+L+IS+N+I + + +L L ++SHN L+ + T + LK ++ S+ + + F+ + + LS N L+DI +F + + +DL+ N+++ + ++ +L ++L+EN Sbjct: 150 KELVIDGHAFQQLPKDLFAGQEIANSLGIIRVTNGNLSDLPIETFQPLRKLKTLDLHGNQLENLKRNQFKNLRELEVLDISHNQIKKLEAQHIADLTKLGWCNVSHNALSELSRGTFARNSVLKVLHLSHNQIARLDANSFRGMRFLRRLFLSDNVLTDIGRGTFGSIARIGTIDLARNRLKKIEFQMFTQMNYVEL-LDLAEN 352
BLAST of SMED30017439 vs. Ensembl Fly
Match: conv (gene:FBgn0261269 transcript:FBtr0087540) HSP 1 Score: 51.2174 bits (121), Expect = 9.002e-6 Identity = 55/204 (26.96%), Postives = 101/204 (49.51%), Query Frame = 3 Query: 321 KSLKIDSPFLTNI-RNVITGYINTSRLETLTVTNGNISIFDISNL-ALPSLKTLSLPKNEIESF---LFPNSNILEILNISYNKITEWNPLNYPNLLTL---DLSHNDLNSFNFKT----ASLKFIYFSNAFSKNISSKFFQSTNNIEFMDLSKNYLSDI---SFLFVHNLNKLDLSFNKIQSLWSIELLTKSFTDLTINLSEN 887 K L ID + +++ G + L + VTNGN+S I L LKTL L N++E+ F N LE+L+IS+N+I + + +L L ++SHN L+ + T + LK ++ S+ + + F+ + + LS N L+DI +F + + +DL+ N+++ + ++ +L ++L+EN Sbjct: 150 KELVIDGHAFQQLPKDLFAGQEIANSLGIIRVTNGNLSDLPIETFQPLRKLKTLDLHGNQLENLKRNQFKNLRELEVLDISHNQIKKLEAQHIADLTKLGWCNVSHNALSELSRGTFARNSVLKVLHLSHNQIARLDANSFRGMRFLRRLFLSDNVLTDIGRGTFGSIARIGTIDLARNRLKKIEFQMFTQMNYVEL-LDLAEN 352
BLAST of SMED30017439 vs. Ensembl Medaka
Match: lgr6 (leucine rich repeat containing G protein-coupled receptor 6 [Source:NCBI gene;Acc:101156653]) HSP 1 Score: 52.7582 bits (125), Expect = 4.076e-6 Identity = 52/164 (31.71%), Postives = 83/164 (50.61%), Query Frame = 3 Query: 375 GYINTSRLETLTVTNGNISIFDISNLA-LPSLKTLSL-PKNEIESFL-FPNSNILEILNISYNKITEWNPLNY----PNLLTLDLSHN---DLNSFNFKTASLKFIYFSNAFSKNISSKFFQSTNNIEFMDLSKNYLSDI---SFLFVHNLNKLDLSFNKIQSL 827 ++ +L+T+ I S LP L TLSL +I+ F + LEIL ++ ++ PL+ P L L+LSHN DL SF + ++L+ I + + I S FQ +++ +DLS N L I +F+ +H+L KLDLS N++ S+ Sbjct: 278 AFVGNPQLQTIHFYENPIQFVGKSAFQFLPKLHTLSLNGATQIQEFPDLKGTTSLEILTLTRAGLSAL-PLDLCEQLPRLRVLELSHNQIEDLPSF-YHCSALQEIGLQHNKIRRIESSTFQQLTSLKALDLSWNVLESIHPDAFVSLHSLIKLDLSENRLSSV 439
BLAST of SMED30017439 vs. Planmine SMEST
Match: SMESG000059833.1 (SMESG000059833.1) HSP 1 Score: 1803.11 bits (4669), Expect = 0.000e+0 Identity = 1025/1026 (99.90%), Postives = 1026/1026 (100.00%), Query Frame = 3 Query: 1644 ATPPISTHNLPVSATSPQLLNLDVVKSENKMSEFACXXXXXXXXXXXQMLYPISNLKEEILKNLDNSQRLQIKRIVGLYKARKIHKSTMLQQIGDFLSQALGTQNYKQHVMKFWSTQKQYTLAENVDSSLTGFNYSSVVQSPEEGPGISPTEQAAQSTTDLEEDKDHHPKPQTSKYKEKISSDASKRLVRSKSTTKNSEAXXXXXXXXXXXGVLETLLNEHDNTIISDKXXXXXXXXXXXXXKLSISSTSKNQLSLDQLLMDDELPIFPNTDEKVPKKTSESASTRNANTKIIKSQPSTPVVSNSMGVLETLLNQKTPSMCTLRQMSTENILKHSIPSRQNSSDIFMEDSSYSFETNDKDKGLKKNSLLITLLNTSQNPEKGKMLNSSSSMEGLSPNYQTKRSRMSSGTQSMLDNSNSNKKMEDKLVSPEVDVFDFVDTEIGFGAXXXXXXXXXXXXXLCTRKRAQSKRTRKRRYSKDRXXXXXXXXXXXXXXXXKYMKNSSVGSVKTDDKNIILTSLLENKKPRSILTPSTPGKVPVNAEKPDNEYTPQAMVYDNQADHDDNLDLEDIKIDDFDLENLIDISENFGESNPVEMNASVDQPTSGVNIQQSNSDPSSLVNKSVVTNSSISGAATFDVMPPVYKMIGPVIKSDPIVPMSKQSVLRVSDKNSILLSAIQSTSTSNSISFECLDNXXXXXXXXXXXXKVCMGGDKPSITMGHQLSLDMLSKQMKEVGPNVMVELSVPSEIPRSRKGSISRSQSGMSTISPTCNPPSLMXXXXXXXXXXXXXXXXXXXMDNTKVPHTNASQVNHQQVREGLRLLVSSRSAQNISKNNMQINRANSGSLTETVPQNDIPSTPKTSVKDVLHYPSSIQSNNPNKDPSYPYSNQSYGSNVNNASEFKTADILEDSLVNDVFGLEELVNSKSRHSSANLEYSRLDIQETMSADLQIESSTFPPGSCQQSTPGNNSFAQSKPPXXXXXXXXXXXXXXXXXXXXPVPNSQPINDSNITTSKEKQNVNSGLLETLLSR 4721 ATPPISTHNLPVSATSPQLLNLDVVKSENKMSEFACNKSSMNKNNNSQMLYPISNLKEEILKNLDNSQRLQIKRIVGLYKARKIHKSTMLQQIGDFLSQALGTQNYKQHVMKFWSTQKQYTLAENVDSSLTGFNYSSVVQSPEEGPGISPTEQAAQSTTDLEEDKDHHPKPQTSKYKEKISSDASKRLVRSKSTTKNSEASIYSITSTTSTGVLETLLNEHDNTIISDKNMSTTISNNMTNSKLSISSTSKNQLSLDQLLMDDELPIFPNTDEKVPKKTSESASTRNANTKIIKSQPSTPVVSNSMGVLETLLNQKTPSMCTLRQMSTENILKHSIPSRQNSSDIFMEDSSYSFETNDKDKGLKKNSLLITLLNTSQNPEKGKMLNSSSSMEGLSPNYQTKRSRMSSGTQSMLDNSNSNKKMEDKLVSPEVDVFDFVDTEIGFGATDTQSTVVTSSQSLCTRKRAQSKRTRKRRYSKDRSVDSDGSSDQLSSLGDKYMKNSSVGSVKTDDKNIILTSLLENKKPRSILTPSTPGKVPVNAEKPDNEYTPQAMVYDNQADHDDNLDLEDIKIDDFDLENLIDISENFGESNPVEMNASVDQPTSGVNIQQSNSDPSSLVNKSVVTNSSISGAATFDVMPPVYKMIGPVIKSDPIVPMSKQSVLRVSDKNSILLSAIQSTSTSNSISFECLDNERERLLRQQQQQKVCMGGDKPSITMGHQLSLDMLSKQMKEVGPNVMVELSVPSEIPRSRKGSISRSQSGMSTISPTCNPPSLMSTSPTCRSSYQSSSSTEISMDNTKVPHTNASQVNHQQVREGLRLLVSSRSAQNISKNNMQINRANSGSLTETVPQNDIPSTPKTSVKDVLHYPSSIQSNNPNKDPSYPYSNQSYGSNVNNASEFKTADILEDSLVNDVFGLEELVNSKSRHSSANLEYSRL+IQETMSADLQIESSTFPPGSCQQSTPGNNSFAQSKPPHHHHHYTHHYHHHHQHHHHHPVPNSQPINDSNITTSKEKQNVNSGLLETLLSR Sbjct: 171 ATPPISTHNLPVSATSPQLLNLDVVKSENKMSEFACNKSSMNKNNNSQMLYPISNLKEEILKNLDNSQRLQIKRIVGLYKARKIHKSTMLQQIGDFLSQALGTQNYKQHVMKFWSTQKQYTLAENVDSSLTGFNYSSVVQSPEEGPGISPTEQAAQSTTDLEEDKDHHPKPQTSKYKEKISSDASKRLVRSKSTTKNSEASIYSITSTTSTGVLETLLNEHDNTIISDKNMSTTISNNMTNSKLSISSTSKNQLSLDQLLMDDELPIFPNTDEKVPKKTSESASTRNANTKIIKSQPSTPVVSNSMGVLETLLNQKTPSMCTLRQMSTENILKHSIPSRQNSSDIFMEDSSYSFETNDKDKGLKKNSLLITLLNTSQNPEKGKMLNSSSSMEGLSPNYQTKRSRMSSGTQSMLDNSNSNKKMEDKLVSPEVDVFDFVDTEIGFGATDTQSTVVTSSQSLCTRKRAQSKRTRKRRYSKDRSVDSDGSSDQLSSLGDKYMKNSSVGSVKTDDKNIILTSLLENKKPRSILTPSTPGKVPVNAEKPDNEYTPQAMVYDNQADHDDNLDLEDIKIDDFDLENLIDISENFGESNPVEMNASVDQPTSGVNIQQSNSDPSSLVNKSVVTNSSISGAATFDVMPPVYKMIGPVIKSDPIVPMSKQSVLRVSDKNSILLSAIQSTSTSNSISFECLDNERERLLRQQQQQKVCMGGDKPSITMGHQLSLDMLSKQMKEVGPNVMVELSVPSEIPRSRKGSISRSQSGMSTISPTCNPPSLMSTSPTCRSSYQSSSSTEISMDNTKVPHTNASQVNHQQVREGLRLLVSSRSAQNISKNNMQINRANSGSLTETVPQNDIPSTPKTSVKDVLHYPSSIQSNNPNKDPSYPYSNQSYGSNVNNASEFKTADILEDSLVNDVFGLEELVNSKSRHSSANLEYSRLNIQETMSADLQIESSTFPPGSCQQSTPGNNSFAQSKPPHHHHHYTHHYHHHHQHHHHHPVPNSQPINDSNITTSKEKQNVNSGLLETLLSR 1196
BLAST of SMED30017439 vs. Planmine SMEST
Match: SMESG000000381.1 (SMESG000000381.1) HSP 1 Score: 924.85 bits (2389), Expect = 0.000e+0 Identity = 480/482 (99.59%), Postives = 480/482 (99.59%), Query Frame = 3 Query: 144 MDLIVNIFVFVLIFSNLANIEFVQGICIVINVNNTSEFQFKDQQESEMRDCIMSSKFLMKSLKIDSPFLTNIRNVITGYINTSRLETLTVTNGNISIFDISNLALPSLKTLSLPKNEIESFLFPNSNILEILNISYNKITEWNPLNYPNLLTLDLSHNDLNSFNFKTASLKFIYFSNAFSKNISSKFFQSTNNIEFMDLSKNYLSDISFLFVHNLNKLDLSFNKIQSLWSIELLTKSFTDLTINLSENPLQCSMDITKDWLNLKMRHILFTEELQCAFERSSSKYSISKYGWMLDKEELILTSIWNGTLLEAYTKTKLIKFSSITLSKGVKVGWSLEMPLDYSFVVSFLSAQKREIFSKNIRLMNDQIFEILFTSASSVTETCFLLNIPKVETTGSKNINVTITCINSLPFNSSSVLSPLGYXXXXXXXXXXXXXXXGAFVYFKFLRPSSRTREINNSIPLEMINANKETMIRRDRGTLSEI 1589 MDLIVNIFVFVLIFSNLANIEFVQGICIVINVNNTSEFQFKDQQESEMRDCIMSSKFLMKSLKIDSPFLTNIRNVITGYINTSRLETLTVTNGNISIFDISNLALPSLKTLSLPKNEIESFLFPNSNILEILNISYNKITEWNPLNYPNLLTLDLSHNDLNSFNFKTASLKFIYFSNAFSKNISSKFFQSTNNIEFMDLSKNYLSDISFLFVHNLNKLDLSFNKIQSLWSIELLTKSFTDLTINLSENPLQCSMDITKDWLNLKMRHILFTEELQCAFERSSSKYSISKYGWMLDKEELILTSIWNGTLLEAYTKTKLIKFSSITLSKGVKVGWSLEMPLDYSFVVSFLSAQKREIFSKNIRLMNDQIFEILFTSASSVTETCFLLNIPKVETTGSKNINVTITCINSLPFNSSSVLSPLGYIIVIVFLVVLSVSLIGAFVYFKFLRPSSRTREINNSIPLEMINANKETMIRRDRG L EI Sbjct: 1 MDLIVNIFVFVLIFSNLANIEFVQGICIVINVNNTSEFQFKDQQESEMRDCIMSSKFLMKSLKIDSPFLTNIRNVITGYINTSRLETLTVTNGNISIFDISNLALPSLKTLSLPKNEIESFLFPNSNILEILNISYNKITEWNPLNYPNLLTLDLSHNDLNSFNFKTASLKFIYFSNAFSKNISSKFFQSTNNIEFMDLSKNYLSDISFLFVHNLNKLDLSFNKIQSLWSIELLTKSFTDLTINLSENPLQCSMDITKDWLNLKMRHILFTEELQCAFERSSSKYSISKYGWMLDKEELILTSIWNGTLLEAYTKTKLIKFSSITLSKGVKVGWSLEMPLDYSFVVSFLSAQKREIFSKNIRLMNDQIFEILFTSASSVTETCFLLNIPKVETTGSKNINVTITCINSLPFNSSSVLSPLGYIIVIVFLVVLSVSLIGAFVYFKFLRPSSRTREINNSIPLEMINANKETMIRRDRGNLPEI 482 The following BLAST results are available for this feature:
BLAST of SMED30017439 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30017439 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30017439 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 2
BLAST of SMED30017439 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30017439 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30017439 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30017439 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30017439 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30017439 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30017439 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30017439 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30017439 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30017439 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 1
BLAST of SMED30017439 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 2
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30017439 ID=SMED30017439|Name=SMED30017439|organism=Schmidtea mediterranea sexual|type=transcript|length=4995bpback to top protein sequence of SMED30017439-orf-1 >SMED30017439-orf-1 ID=SMED30017439-orf-1|Name=SMED30017439-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=1527bp MDLIVNIFVFVLIFSNLANIEFVQGICIVINVNNTSEFQFKDQQESEMRDback 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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