SMED30004541
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., 2020SMED30004541 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 6
Alignments
SMED30004541 aligns in the following genomic locations:
Homology
BLAST of SMED30004541 vs. Planmine SMEST
Match: SMESG000056767.1 (SMESG000056767.1) HSP 1 Score: 985.712 bits (2547), Expect = 0.000e+0 Identity = 472/495 (95.35%), Postives = 472/495 (95.35%), Query Frame = 1 Query: 55 MSFVSKWFQKCHAARLSKYNQEVINKEHFIDKYPKFPFSTNFLNEIMILTYGYENSIADDDSFPVSHIQWNEKIFYGYKEISYLKLLDMKCESSLKSANSKNLEDIHVDRNHSPSIDESTFFNAKEPSGSNLAETVKDVRCWFPLWIDGVCKIVCQLHQPQRTVITGAVLSYSHSQKLFTTLYCSYKFTDGIDIEFMGKYVKFLQEMPLELLGKFDGDNWLQFALKLSLLSRNGFFACSSKPITKLSGCRRSQFINNIIGRAQLKKQLKRPRNSERPVNYLSICEELETIASAIQESARDWVTMFQAFLLRHGENVSEKFAGIDSQNPVARLLIXXXXXXXXXXXXXXSLFHSRPVDLDTSQESISYENFSGGEKCNSTFTNLDGKLVLWSVTRNPIGQFCISGMKLTNGRQRFIEIDPVAIGSVMNSGKAVIADKCCYELLGPMYPLSIRLAVPSASNIDYIWPLLTHFTNGLPLHWKCFAQAIDVLCKCSPLR 1539 MSFVSKWFQKCHAARLSKYNQEVINKEHFIDKYPKFPFSTNFLNEIMILTYGYENSIADDDSFPVSHIQWNEKIFYGYKEISYLKLLDMKCESSLKSANSKNLEDIHVDRNHSPSIDESTFFNAKEPSGSNLAETVKDVRCWFPLWIDGVCKIVCQLHQPQRTVITGAVLSYSHSQKLFTTLYCSYKFTDGIDIEFMGKYVKFLQEMPLELLGKFDGDNWLQFALKLSLLSRNGFFACSSKPITKLSGCRRSQFINNIIGRAQLKKQLKRPRNSERPVNYLSICEELETIASAIQESARDWVTMFQAFLLRHGENVSEKFAGIDSQNPVA RPVDLDTSQESISYENFSGGEKCNSTFTNLDGKLVLWSVTRNPIGQFCISGMKLTNGRQRFIEIDPVAIGSVMNSGKAVIADKCCYELLGPMYPLSIRLAVPSASNIDYIWPLLTHFTNGLPLHWKCFAQAIDVLCKCSPLR Sbjct: 1 MSFVSKWFQKCHAARLSKYNQEVINKEHFIDKYPKFPFSTNFLNEIMILTYGYENSIADDDSFPVSHIQWNEKIFYGYKEISYLKLLDMKCESSLKSANSKNLEDIHVDRNHSPSIDESTFFNAKEPSGSNLAETVKDVRCWFPLWIDGVCKIVCQLHQPQRTVITGAVLSYSHSQKLFTTLYCSYKFTDGIDIEFMGKYVKFLQEMPLELLGKFDGDNWLQFALKLSLLSRNGFFACSSKPITKLSGCRRSQFINNIIGRAQLKKQLKRPRNSERPVNYLSICEELETIASAIQESARDWVTMFQAFLLRHGENVSEKFAGIDSQNPVA-----------------------RPVDLDTSQESISYENFSGGEKCNSTFTNLDGKLVLWSVTRNPIGQFCISGMKLTNGRQRFIEIDPVAIGSVMNSGKAVIADKCCYELLGPMYPLSIRLAVPSASNIDYIWPLLTHFTNGLPLHWKCFAQAIDVLCKCSPLR 472 HSP 2 Score: 291.582 bits (745), Expect = 2.382e-130 Identity = 156/157 (99.36%), Postives = 156/157 (99.36%), Query Frame = 1 Query: 2020 GHSVGMSSQLPMKKGQLQNQRVKKKKCSFAIPLIXXXXXXXXXXXXXXGPAIRGVEREPQLNYRKKAVKNSQQHRARSSLFDVDFTPSRRHSLDYSQYIVEYMCLNDMVQTTRSGRKSLPPLDPRFDLEYKIENEKVFLLSNGEKFELASRVARSHR 2490 HSVGMSSQLPMKKGQLQNQRVKKKKCSFAIPLISMSRSDFSRSRSVSGPAIRGVEREPQLNYRKKAVKNSQQHRARSSLFDVDFTPSRRHSLDYSQYIVEYMCLNDMVQTTRSGRKSLPPLDPRFDLEYKIENEKVFLLSNGEKFELASRVARSHR Sbjct: 583 SHSVGMSSQLPMKKGQLQNQRVKKKKCSFAIPLISMSRSDFSRSRSVSGPAIRGVEREPQLNYRKKAVKNSQQHRARSSLFDVDFTPSRRHSLDYSQYIVEYMCLNDMVQTTRSGRKSLPPLDPRFDLEYKIENEKVFLLSNGEKFELASRVARSHR 739 HSP 3 Score: 195.282 bits (495), Expect = 2.382e-130 Identity = 113/114 (99.12%), Postives = 113/114 (99.12%), Query Frame = 2 Query: 1640 RPHESSSMLFLTPIPAXXXXXXXXXXXXHTISDTNTILMMPDVRLDRLPIVVEKAVDRSSDANIHQSPTTRSILDISPVLPQRPVVRNHEEPPVSSVAVTTINTRKRRTESSKS 1981 RPHESSSMLFLTPIPASRSRRNSQSSNSHTISDTNTILMMPDVRLDRLPIVVEKAVDRSSDANIHQSPTTRSILDISPVLPQRPVVRNHEEPPVSSVAVTTINTRKRRTESS S Sbjct: 472 RPHESSSMLFLTPIPASRSRRNSQSSNSHTISDTNTILMMPDVRLDRLPIVVEKAVDRSSDANIHQSPTTRSILDISPVLPQRPVVRNHEEPPVSSVAVTTINTRKRRTESSHS 585
BLAST of SMED30004541 vs. Planmine SMEST
Match: SMESG000016241.1 (SMESG000016241.1) HSP 1 Score: 379.793 bits (974), Expect = 1.230e-116 Identity = 199/376 (52.93%), Postives = 250/376 (66.49%), Query Frame = 1 Query: 457 TVKDVRCWFPLWIDGVCKIVCQLH----QPQRTVITGAVLSYSHSQKLFTTLYCSYKFTDGIDIEFMGKYVKFLQEMPLELLGKFDGDNWLQFALKLSLLSRNGFFACSSKPITKLSGCRRSQFINNIIGRAQLKKQLKRPRNSERPVNYLSICEELETIASAIQESARDWVTMFQAFLLRHGENV--SEKFAGIDSQNPVARLLIXXXXXXXXXXXXXXSLFHSRPVDLDTSQESISYENFSGGEKCNSTFTNLDGKLVLWSVTRNPIGQFCISGMKLTNGRQRFIEIDPVAIGSVMNSGKAVIADKCCYELLGPMYPLSIRLAVPSASNIDYIWPLLTHFTNGLPLHWKCFAQAIDVLCKCSPLRYSSISLDDC 1566 TV+ + WFP+WIDGVCK+V Q+ Q +T ITGAVLSY HS+KLFTTL CSY FTDGIDIEFMGKYVKFLQE PLELLGKFDGDNWL+FA+KLSLLSRNGFFACSS+ K + + ++ + +KK E+P +YLS+C+ELETIA+ I ++ +W+ F+ L ++G+NV +EK I N S+PVDLDT +IS ++F+GGEK +ST N + KLVLWSVT N GQ CISG +LT+ + F EI P I SV N+ +AVIA+KCCYEL+GPMY LS+RLA P A N++Y+WP T+FT+ LP +WK F AID LCKCSPLR S D Sbjct: 478 TVRIIHRWFPIWIDGVCKLVGQIQNSSNQSHKTAITGAVLSYCHSEKLFTTLDCSYIFTDGIDIEFMGKYVKFLQEKPLELLGKFDGDNWLKFAIKLSLLSRNGFFACSSESFKKSLQTNPNSVLLKVLCKTPVKKIYSGTPKVEQPPHYLSVCKELETIANLIGKNG-NWLHGFEKLLQKYGQNVILNEKLKSIMDSN------------------------LSKPVDLDT---TISLDDFNGGEKFSSTLVNFESKLVLWSVTVNTNGQLCISGFQLTDSNKLFNEIKPTPISSVTNNRRAVIANKCCYELVGPMYTLSLRLAYPEAVNMEYLWPFQTYFTSCLPSNWKAFILAIDTLCKCSPLRKESCEAADV 825
BLAST of SMED30004541 vs. Planmine SMEST
Match: SMESG000016241.1 (SMESG000016241.1) HSP 1 Score: 380.178 bits (975), Expect = 2.828e-116 Identity = 199/376 (52.93%), Postives = 250/376 (66.49%), Query Frame = 1 Query: 457 TVKDVRCWFPLWIDGVCKIVCQLH----QPQRTVITGAVLSYSHSQKLFTTLYCSYKFTDGIDIEFMGKYVKFLQEMPLELLGKFDGDNWLQFALKLSLLSRNGFFACSSKPITKLSGCRRSQFINNIIGRAQLKKQLKRPRNSERPVNYLSICEELETIASAIQESARDWVTMFQAFLLRHGENV--SEKFAGIDSQNPVARLLIXXXXXXXXXXXXXXSLFHSRPVDLDTSQESISYENFSGGEKCNSTFTNLDGKLVLWSVTRNPIGQFCISGMKLTNGRQRFIEIDPVAIGSVMNSGKAVIADKCCYELLGPMYPLSIRLAVPSASNIDYIWPLLTHFTNGLPLHWKCFAQAIDVLCKCSPLRYSSISLDDC 1566 TV+ + WFP+WIDGVCK+V Q+ Q +T ITGAVLSY HS+KLFTTL CSY FTDGIDIEFMGKYVKFLQE PLELLGKFDGDNWL+FA+KLSLLSRNGFFACSS+ K + + ++ + +KK E+P +YLS+C+ELETIA+ I ++ +W+ F+ L ++G+NV +EK I N S+PVDLDT +IS ++F+GGEK +ST N + KLVLWSVT N GQ CISG +LT+ + F EI P I SV N+ +AVIA+KCCYEL+GPMY LS+RLA P A N++Y+WP T+FT+ LP +WK F AID LCKCSPLR S D Sbjct: 531 TVRIIHRWFPIWIDGVCKLVGQIQNSSNQSHKTAITGAVLSYCHSEKLFTTLDCSYIFTDGIDIEFMGKYVKFLQEKPLELLGKFDGDNWLKFAIKLSLLSRNGFFACSSESFKKSLQTNPNSVLLKVLCKTPVKKIYSGTPKVEQPPHYLSVCKELETIANLIGKNG-NWLHGFEKLLQKYGQNVILNEKLKSIMDSN------------------------LSKPVDLDT---TISLDDFNGGEKFSSTLVNFESKLVLWSVTVNTNGQLCISGFQLTDSNKLFNEIKPTPISSVTNNRRAVIANKCCYELVGPMYTLSLRLAYPEAVNMEYLWPFQTYFTSCLPSNWKAFILAIDTLCKCSPLRKESCEAADV 878
BLAST of SMED30004541 vs. Planmine SMEST
Match: SMESG000016241.1 (SMESG000016241.1) HSP 1 Score: 337.035 bits (863), Expect = 1.559e-100 Identity = 178/338 (52.66%), Postives = 224/338 (66.27%), Query Frame = 1 Query: 559 VLSYSHSQKLFTTLYCSYKFTDGIDIEFMGKYVKFLQEMPLELLGKFDGDNWLQFALKLSLLSRNGFFACSSKPITKLSGCRRSQFINNIIGRAQLKKQLKRPRNSERPVNYLSICEELETIASAIQESARDWVTMFQAFLLRHGENV--SEKFAGIDSQNPVARLLIXXXXXXXXXXXXXXSLFHSRPVDLDTSQESISYENFSGGEKCNSTFTNLDGKLVLWSVTRNPIGQFCISGMKLTNGRQRFIEIDPVAIGSVMNSGKAVIADKCCYELLGPMYPLSIRLAVPSASNIDYIWPLLTHFTNGLPLHWKCFAQAIDVLCKCSPLRYSSISLDDC 1566 +LSY HS+KLFTTL CSY FTDGIDIEFMGKYVKFLQE PLELLGKFDGDNWL+FA+KLSLLSRNGFFACSS+ K + + ++ + +KK E+P +YLS+C+ELETIA+ I ++ +W+ F+ L ++G+NV +EK I N S+PVDLDT+ IS ++F+GGEK +ST N + KLVLWSVT N GQ CISG +LT+ + F EI P I SV N+ +AVIA+KCCYEL+GPMY LS+RLA P A N++Y+WP T+FT+ LP +WK F AID LCKCSPLR S D Sbjct: 559 LLSYCHSEKLFTTLDCSYIFTDGIDIEFMGKYVKFLQEKPLELLGKFDGDNWLKFAIKLSLLSRNGFFACSSESFKKSLQTNPNSVLLKVLCKTPVKKIYSGTPKVEQPPHYLSVCKELETIANLIGKNG-NWLHGFEKLLQKYGQNVILNEKLKSIMDSN------------------------LSKPVDLDTT---ISLDDFNGGEKFSSTLVNFESKLVLWSVTVNTNGQLCISGFQLTDSNKLFNEIKPTPISSVTNNRRAVIANKCCYELVGPMYTLSLRLAYPEAVNMEYLWPFQTYFTSCLPSNWKAFILAIDTLCKCSPLRKESCEAADV 868 The following BLAST results are available for this feature:
BLAST of SMED30004541 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30004541 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30004541 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30004541 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30004541 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30004541 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30004541 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30004541 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30004541 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30004541 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30004541 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30004541 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30004541 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30004541 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 4
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30004541 ID=SMED30004541|Name=SMED30004541|organism=Schmidtea mediterranea sexual|type=transcript|length=2509bpback to top protein sequence of SMED30004541-orf-1 >SMED30004541-orf-1 ID=SMED30004541-orf-1|Name=SMED30004541-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=153bp MSSQLPMKKGQLQNQRVKKKKCSFAIPLISMSRSDFSRSRSVSGPAIRGVback to top protein sequence of SMED30004541-orf-2 >SMED30004541-orf-2 ID=SMED30004541-orf-2|Name=SMED30004541-orf-2|organism=Schmidtea mediterranea sexual|type=polypeptide|length=345bp MSFVSKWFQKCHAARLSKYNQEVINKEHFIDKYPKFPFSTNFLNEIMILTback to top protein sequence of SMED30004541-orf-3 >SMED30004541-orf-3 ID=SMED30004541-orf-3|Name=SMED30004541-orf-3|organism=Schmidtea mediterranea sexual|type=polypeptide|length=157bp MKLTNGRQRFIEIDPVAIGSVMNSGKAVIADKCCYELLGPMYPLSIRLAVback to top protein sequence of SMED30004541-orf-4 >SMED30004541-orf-4 ID=SMED30004541-orf-4|Name=SMED30004541-orf-4|organism=Schmidtea mediterranea sexual|type=polypeptide|length=196bp MVSPCIGNVSLRPLMCCANVLLSGTHLFHWMIVRGCWGICPPATYRTAVPback to top Annotated Terms
The following terms have been associated with this transcript:
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