SMED30018802
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., 2020SMED30018802 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 5
Homology
BLAST of SMED30018802 vs. TrEMBL
Match: A0A2U8U4E6 (HSP27 OS=Dugesia japonica OX=6161 GN=hsp27 PE=2 SV=1) HSP 1 Score: 82.4185 bits (202), Expect = 1.793e-14 Identity = 63/226 (27.88%), Postives = 115/226 (50.88%), Query Frame = 1 Query: 154 PNETDS-RMPSSVDRMRIIRYERNENSEVEFKFIIDLGDFTPEEIGINQTGYQVAISGS--------RVVLPGSLRKSKEFYEVVSLPKNADMGKDLEAQFNPDGNLIIKIQIVPRLFSS-------STYV--TPKQKFDRCP--LIEDEKTFFVEQVIVDQEFRDADIKVNVDGNIINIFAAIETKNDNGDIIVKEYHEECRLPPHINPDDLRADYMNGVLALNA 771 PNE + R + R+ R ERN+ + E+ ID+ DF EEI + Q + + I S S + KE+++ + LP D+ K +E + DG LIIKI + + SS +Y+ +P++K P L+ + K + E++ +D +F DIK+N +G +I + A + + NG + + Y+ E + P +++ + ++AD+ +G L ++A Sbjct: 14 PNEAEYVRCSTPNQRLGSPRLERNDQGDEEYTVEIDVRDFRAEEIKVKQNDHTLIIDASCSKTSKTCEESSSCSRSEKKEYHKTILLPPYVDLSKKMETIYT-DGKLIIKIPALHQPHSSIPGSAQIRSYLSQSPREKHS-VPEALMRNGKNVYSEKLKLDPDFTKDDIKINTNGQLIIVNATQKRIDPNGCVSTRNYNSEHKFPANVDLEQIQADWCDGELLISA 237
BLAST of SMED30018802 vs. TrEMBL
Match: A0A4Z2CMP3 (Major egg antigen isoform 1 OS=Schistosoma japonicum OX=6182 GN=EWB00_009261 PE=3 SV=1) HSP 1 Score: 60.8474 bits (146), Expect = 7.764e-7 Identity = 51/219 (23.29%), Postives = 101/219 (46.12%), Query Frame = 1 Query: 211 YERNENSEVEFKFIIDLGDFTPEEIGINQTGYQVAISGSRVVLPGSLRKSKEFYEVVSLPKNADMGKDLEAQFNPDGNLII------------------KIQIVPRLFSSSTYVTPKQ----KFDRCPLIEDE----KTFFVEQVIVDQEFRDADIKVNVDGNIINIFAAIETKNDNGDIIVK------EYHEECRLPPHINPDDLRADYMNGVLALNA 771 YE ++ +V FK D+ F+PE+I ++ T +V + +V G+ + S++F ++ LP++ + K L+ + DG LI+ ++ I P ++ S +VTP + K P I DE K VE + +D ++ D+ ++VD + I + + +K+D+ K E+ +P ++P + + + L + A Sbjct: 34 YEVGKDGKVHFKVRFDVKGFSPEDINVSTTDNRVVVCAKKVTETGTSKSSRQFCRMIELPQSIEQTK-LDCRLTNDGVLILEAPVKSTEHKSVTFNDKRQLAIRPTSYTQSGHVTPSKALVVKGVTGPTIIDEGFKGKRLHVE-IPIDPMYKSEDLCIHVDPDRI-VVSGRRSKSDSHSASWKKNTPCAEFSHSYDIPHRVDPSSVTSQLVGNTLVIEA 249
BLAST of SMED30018802 vs. TrEMBL
Match: A0A4Z2CMF6 (Major egg antigen isoform 2 OS=Schistosoma japonicum OX=6182 GN=EWB00_009261 PE=3 SV=1) HSP 1 Score: 60.077 bits (144), Expect = 2.406e-6 Identity = 54/235 (22.98%), Postives = 107/235 (45.53%), Query Frame = 1 Query: 163 TDSRMPSSVDRMRIIRYERNENSEVEFKFIIDLGDFTPEEIGINQTGYQVAISGSRVVLPGSLRKSKEFYEVVSLPKNADMGKDLEAQFNPDGNLII------------------KIQIVPRLFSSSTYVTPKQ----KFDRCPLIEDE----KTFFVEQVIVDQEFRDADIKVNVDGNIINIFAAIETKNDNGDIIVK------EYHEECRLPPHINPDDLRADYMNGVLALNA 771 TD+ S++ YE ++ +V FK D+ F+PE+I ++ T +V + +V G+ + S++F ++ LP++ + K L+ + DG LI+ ++ I P ++ S +VTP + K P I DE K VE + +D ++ D+ ++VD + I + + +K+D+ K E+ +P ++P + + + L + A Sbjct: 116 TDAPFTGSLNDFLKDAYEVGKDGKVHFKVRFDVKGFSPEDINVSTTDNRVVVCAKKVTETGTSKSSRQFCRMIELPQSIEQTK-LDCRLTNDGVLILEAPVKSTEHKSVTFNDKRQLAIRPTSYTQSGHVTPSKALVVKGVTGPTIIDEGFKGKRLHVE-IPIDPMYKSEDLCIHVDPDRI-VVSGRRSKSDSHSASWKKNTPCAEFSHSYDIPHRVDPSSVTSQLVGNTLVIEA 347
BLAST of SMED30018802 vs. TrEMBL
Match: A0A183X259 (Uncharacterized protein OS=Trichobilharzia regenti OX=157069 GN=TRE_LOCUS18464 PE=3 SV=1) HSP 1 Score: 59.6918 bits (143), Expect = 3.109e-6 Identity = 55/214 (25.70%), Postives = 91/214 (42.52%), Query Frame = 1 Query: 211 YERNENSEVEFKFIIDLGDFTPEEIGINQTGYQVAISGSRVVLPGSLRKSKEFYEVVSLPKNADMGKDLEAQFNPDGNLIIKIQIVPRLFSSSTYVTPKQ------------------KFDRCPLI-EDE---KTFFVEQVIVDQEFRDADIKVNVDGNIINIFAAIETKNDN-----GDIIVKEYHEECRLPPHINPDDLRADYMNGVLALNA 771 YE E+ ++ FK D+ F P++I +N T +V + +V S + S+EF V+ LP+ D L+ + DG L+++ + + S T+ +Q K PLI EDE K VE V VD ++ D+ +NVD N + + +DN E+ +P ++P + A + L L A Sbjct: 135 YELGEDGKLHFKVHFDVKGFEPDDIKVNSTENRVNVHAKKVTESDSSKSSREFCRVIELPRTID-NSHLQCRLTDDGVLMLEAPVKSPDYESITFTDNRQLGIHPKSTDQVQSKPLVVKGVSGPLILEDEGNRKLLHVE-VPVDPIYKSEDLCINVDSNRVVVSGRCHKTDDNHSNKKSKTSYAEFTHSYEIPETVDPLSVTAQLIGNRLVLEA 346
BLAST of SMED30018802 vs. Planmine SMEST
Match: SMESG000030480.1 (SMESG000030480.1) HSP 1 Score: 493.812 bits (1270), Expect = 2.026e-178 Identity = 240/241 (99.59%), Postives = 240/241 (99.59%), Query Frame = 1 Query: 136 MAAFLKPNETDSRMPSSVDRMRIIRYERNENSEVEFKFIIDLGDFTPEEIGINQTGYQVAISGSRVVLPGSLRKSKEFYEVVSLPKNADMGKDLEAQFNPDGNLIIKIQIVPRLFSSSTYVTPKQKFDRCPLIEDEKTFFVEQVIVDQEFRDADIKVNVDGNIINIFAAIETKNDNGDIIVKEYHEECRLPPHINPDDLRADYMNGVLALNAICRSGNNSRYGSLRSNRTGMSTLSDVFHY 858 MAAFLKPNETDSRMPSSVDRMRIIRYERNENSEVEFKFIIDLGDFTPEEIGINQTGYQVAISGSRVVLPGSLRKSKEFYEVVSLPKNADMGKDLEAQFNPDGNLIIKIQIVPRLFSSSTYVTPKQKFDRCPLIEDEKTFFVEQVIVDQEFRDADIKVNVDGNIINIFAAIETKNDNGDIIVKEYHEECRLPPHINPDDLRADYMNGVL LNAICRSGNNSRYGSLRSNRTGMSTLSDVFHY Sbjct: 1 MAAFLKPNETDSRMPSSVDRMRIIRYERNENSEVEFKFIIDLGDFTPEEIGINQTGYQVAISGSRVVLPGSLRKSKEFYEVVSLPKNADMGKDLEAQFNPDGNLIIKIQIVPRLFSSSTYVTPKQKFDRCPLIEDEKTFFVEQVIVDQEFRDADIKVNVDGNIINIFAAIETKNDNGDIIVKEYHEECRLPPHINPDDLRADYMNGVLTLNAICRSGNNSRYGSLRSNRTGMSTLSDVFHY 241
BLAST of SMED30018802 vs. Planmine SMEST
Match: SMESG000030472.1 (SMESG000030472.1) HSP 1 Score: 103.219 bits (256), Expect = 1.157e-25 Identity = 72/226 (31.86%), Postives = 123/226 (54.42%), Query Frame = 1 Query: 154 PNETD-SRMPSSVDRMRIIRYERNENSEVEFKFIIDLGDFTPEEIGINQTGYQVAISGS--------RVVLPGSLRKSKEFYEVVSLPKNADMGKDLEAQFNPDGNLIIKIQIVPRLFSS---STYV------TPKQKFDRCP--LIEDEKTFFVEQVIVDQEFRDADIKVNVDGNIINIFAAIETKNDNGDIIVKEYHEECRLPPHINPDDLRADYMNGVLALNA 771 P+ET+ R + R+ RYERNE +VE+ + ID+ DF+ EEI I Q + + I + S + KE+++ + LP+NAD+ K LE +N DG LIIKI ++P +SS S +V +P+ K P LI + K + E + +D +F DIK+NV+G + + A + + +G + + Y+ E + P +++ + ++AD+ G L ++A Sbjct: 14 PSETEFIRCSTPSQRLSSPRYERNEQGDVEYTYEIDVSDFSAEEIKIKQHDHTLTIDANCSRSSKTCEESSSCSRSEKKEYHKTILLPQNADLTKKLETIYN-DGILIIKIPVIPNPYSSIPGSAHVRSYPSQSPRDKI-IVPEALIRNGKHVYSETLKMDPDFTKDDIKINVNGQTVVVNATQKRVDPHGCVSTRNYNSEHKFPTNVDLEHIQADWCGGELLISA 237
BLAST of SMED30018802 vs. Planmine SMEST
Match: SMESG000009940.1 (SMESG000009940.1) HSP 1 Score: 66.2402 bits (160), Expect = 4.494e-12 Identity = 37/100 (37.00%), Postives = 63/100 (63.00%), Query Frame = 1 Query: 208 RYERNENSEVEFKFIIDLGDFTPEEIGINQTGYQVAI------SGSRVVLPGSLRKS--KEFYEVVSLPKNADMGKDLEAQFNPDGNLIIKIQIVPRLFS 483 RYE++ N +V++ F +D+ F+P +I I+Q G +AI SGS+ + G+ +S KEF + +SLP N DM K++ + + +G L I+I I+P+ +S Sbjct: 26 RYEKSTNGDVDYIFTVDVDGFSPSDIRIDQRGNMLAIEAKQSKSGSKKGVHGNTEESEYKEFKKEISLPSNIDMKKEMRSVYTENGLLEIRIPILPQTYS 125 HSP 2 Score: 53.5286 bits (127), Expect = 6.183e-8 Identity = 29/91 (31.87%), Postives = 54/91 (59.34%), Query Frame = 1 Query: 529 LIEDEKTFFVEQVIVDQEFRDADIKVNVDGNIINIFAAIETKNDNGDIIVKEYHEECRLPPHINPDDLRADYM-NGVLALNAICRSGNNSR 798 LI D+ +VE++++D FR D+ + G + I A E NG +KE+++E LP +++PD+L+A + NGV+ + A +S +++ Sbjct: 196 LITDKSKNYVEEIVIDPIFRPEDLNIKTKGYRVIISAKHEESGPNGYTNMKEFNDEHDLPSNVDPDNLKATLIDNGVVLIEAPYKSTASTK 286 The following BLAST results are available for this feature:
BLAST of SMED30018802 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30018802 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30018802 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30018802 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30018802 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30018802 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30018802 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30018802 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 4
BLAST of SMED30018802 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30018802 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30018802 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30018802 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30018802 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30018802 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 3
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30018802 ID=SMED30018802|Name=SMED30018802|organism=Schmidtea mediterranea sexual|type=transcript|length=1018bpback to top protein sequence of SMED30018802-orf-1 >SMED30018802-orf-1 ID=SMED30018802-orf-1|Name=SMED30018802-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=242bp MAAFLKPNETDSRMPSSVDRMRIIRYERNENSEVEFKFIIDLGDFTPEEIback 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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