SMED30013198
Overview
Neoblast Clusters
Zeng et. al., 2018▻ Overview▻ 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 AppSub-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., 2020SMED30013198 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 4
Homology
BLAST of SMED30013198 vs. TrEMBL
Match: S9W8G9 (Ubiquitin carboxyl-terminal hydrolase OS=Schizosaccharomyces cryophilus (strain OY26 / ATCC MYA-4695 / CBS 11777 / NBRC 106824 / NRRL Y48691) OX=653667 GN=SPOG_04058 PE=3 SV=1) HSP 1 Score: 60.4622 bits (145), Expect = 4.017e-6 Identity = 66/307 (21.50%), Postives = 123/307 (40.07%), Query Frame = 1 Query: 355 GLVGLKKRNQECCINSIAQALASSTKI-------IEQFHEVKSHIPFCIALQILLELIAGLNQRFPFSNLEENTNLIKKLAKNIKWSQKSQQDGYGLLSAIIQGIHQEMK-EVKIEIEYPLRIDMVNKMSGLDTQNTIQSQ-------IGLSIELAGPYNVYPGVTLDYLIQNHFSPFVIDGDPSSTSQVLFLSRTPTSLLFHIQLDKYHDKK-QQTLRLDYFIAYSEFLSLEFNLVLDIDCGEVIKEKVDYKLVAVIERKEELSGSHYRTYRKFEGNWILADDERIIYVEFT--CHVQPYILIYEK 1221 GL G++ C ++ I Q+ + + F K A+ + + ++ F NL+ K++K++ S SQQDG+ L ++ +H E + + P+ M + T + ++Q + +S++L P G Y+ H D + ++ LF + P +L +QL ++ + ++D I Y L +++N D VDY+L +++ K L HY Y F+ +W L DD I V + + Q Y+L Y + Sbjct: 144 GLRGIQNLGATCFMSVILQSTLHNPLLRNLFLSGFHTFETCKRSSCMTCAIDNMFASVYASKEKTSFYGPTVILNLMWKMSKSL--SGYSQQDGHEFLVYLLDQMHSESGGDNSFPCKCPIHKIFSGSMKNVITCSECKTQKVATDPLMEVSLDLHEP--SIQGCLERYISPEHIQYTCSDCSAKTATKQLFFDKLPPTLC--LQLKRFEQNSFAISTKVDKVITYPMLLKMQYNFNQD---------SVDYQLYSIVCHKGTLDTGHYIAYTLFQDHWYLLDDTTITVVSESEVLNTQAYLLFYHE 435
BLAST of SMED30013198 vs. Planmine SMEST
Match: SMESG000057605.1 (SMESG000057605.1) HSP 1 Score: 694.886 bits (1792), Expect = 0.000e+0 Identity = 355/361 (98.34%), Postives = 357/361 (98.89%), Query Frame = 1 Query: 142 MTPQLDXXXXXXXXXXXXXXXXFCLFLYCVCNREDFERPNQHLYREISYKSLYDSESESSMHQKIGNINECGLVGLKKRNQECCINSIAQALASSTKIIEQFHEVKSHIPFCIALQILLELIAGLNQRFPFSNLEENTNLIKKLAKNIKWSQKSQQDGYGLLSAIIQGIHQEMKEVKIEIEYPLRIDMVNKMSGLDTQNTIQSQIGLSIELAGPYNVYPGVTLDYLIQNHFSPFVIDGDPSSTSQVLFLSRTPTSLLFHIQLDKYHDKKQQTLRLDYFIAYSEFLSLEFNLVLDIDCGEVIKEKVDYKLVAVIERKEELSGSHYRTYRKFEGNWILADDERIIYVEFTCHVQPYILIYEKL 1224 MTPQLDGGIIAVTVILLIVLVGFCLFLYCVCNREDFERPN+HLYREISYKSLYDSESESSMHQKIGNINECGLVGLKKRNQECCINSI QALASSTKIIEQFHEVKSHIPFCIALQILLELIAGLNQRFPFSNLEENTNLIKKLAKNIKWSQKSQQDGYGLLSAIIQGIHQEMKEVKIEIEYPLRIDMVNKMSGLDTQNTIQ+QIGLSIELAGPYNVYPGVTLDYLIQNHFSP VIDGDPSSTSQVLFL RTPTSLLFHIQLDKYHDKKQQTLRLDYFIAYSEFLSLEFNLV DIDCGEVIKEKVDYKLVAVIERKEELSGSHYRTYRKFEGNWILADDERIIYVEFTCHVQPYILIYEKL Sbjct: 1 MTPQLDGGIIAVTVILLIVLVGFCLFLYCVCNREDFERPNEHLYREISYKSLYDSESESSMHQKIGNINECGLVGLKKRNQECCINSIVQALASSTKIIEQFHEVKSHIPFCIALQILLELIAGLNQRFPFSNLEENTNLIKKLAKNIKWSQKSQQDGYGLLSAIIQGIHQEMKEVKIEIEYPLRIDMVNKMSGLDTQNTIQTQIGLSIELAGPYNVYPGVTLDYLIQNHFSPSVIDGDPSSTSQVLFLGRTPTSLLFHIQLDKYHDKKQQTLRLDYFIAYSEFLSLEFNLVSDIDCGEVIKEKVDYKLVAVIERKEELSGSHYRTYRKFEGNWILADDERIIYVEFTCHVQPYILIYEKL 361
BLAST of SMED30013198 vs. Planmine SMEST
Match: SMESG000057792.1 (SMESG000057792.1) HSP 1 Score: 219.935 bits (559), Expect = 6.596e-68 Identity = 111/289 (38.41%), Postives = 177/289 (61.25%), Query Frame = 1 Query: 364 GLKKRNQECCINSIAQALASSTKIIEQFHEVKSHIPFCIALQILLELIAGLNQ-RFPFSNLEENTNLIKKLAKNIKWSQKSQQDGYGLLSAIIQGIHQEMKEVKIE-IEYPLRIDMVNKMSGLDTQNTIQSQIGLSIELAGPYNVYPGVTLDYLIQNHFSPFVIDGDPSSTSQVLFLSRTPTSLLFHIQLDKYHDKKQQTLRLDYFIAYSEFLSLEFNLVLDIDCGEVIKEKVDYKLVAVIERKEELSGSHYRTYRKFEGNWILADDERIIYVEFTCHVQPYILIYEKL 1224 G K + C +N+I QA ASS +I QF + ++L+ +++ G+N + L +NTN ++ L + + W++ +QQD + L +A+I+GI E K I+ IE PL++ MV + GLD + Q +GLS+ L+GPY PGVTL++LI HFSP +IDGDP+ TSQ+ FL P LL HIQ +K+ K++ ++ Y I Y + +++ F+++ ++ V + V Y+L AV++ +SG HY YRK+ NW L DE++ +EF+ ++ PYILIYEK+ Sbjct: 66 GFKNLAETCYMNAIIQAAASSQILISQFQHLHETYKESMSLKCFYDVLIGVNTPDDSYVRLCKNTNQLETLIRLVNWTKTNQQDAFELFTALIKGISDEFKAQNIDDIEMPLKLKMVYRFKGLDIPDRTQYHLGLSLGLSGPYETKPGVTLEFLILEHFSPTLIDGDPNKTSQLFFLKGAPDVLLLHIQANKWDSVKEKMIKPKYHIVYDQEMTIWFDIITALNKDNVKRISVTYRLTAVVQHMGTISGGHYVAYRKWRNNWYLVSDEQVELMEFSGNICPYILIYEKI 354
BLAST of SMED30013198 vs. Planmine SMEST
Match: SMESG000057791.1 (SMESG000057791.1) HSP 1 Score: 196.823 bits (499), Expect = 1.691e-59 Identity = 108/316 (34.18%), Postives = 178/316 (56.33%), Query Frame = 1 Query: 322 MHQKIGNINE-------CGLVGLKKR-------NQECCINSIAQALASSTKIIEQFHEVKSHIPFCIALQILLELIAGLNQRFPFS-NLEENTNLIKKLAKNIKWSQKSQQDGYGLLSAIIQGIHQEMKEVKIEIEYPLRIDMVNKMSGLDTQNTIQSQIGLSIELAGPYNVYPGVTLDYLIQNHFSPFVIDGDPSSTSQVLFLSRTPTSLLFHIQLDKYHDKKQQTLRLDYFIAYSEFLSLEFNLVLDIDCGEVIKEKVDYKLVAVIERKEELSGSHYRTYRKFEGNWILADDERIIYVEFTCHVQPYILIYEKL 1224 MH+ NI++ C KR + +C + S+ QA+A+S +I QF ++ P C +L L++L+ G+ ++ + N ENT ++ +L IKW++ SQQD + +++AI + I +K + + P++I +++ G+D N IQ+ +GLS+ L G Y+ PGV L+YLI HF P +IDG+P+ TS + + P LL HIQ +K+ D ++ Y+I Y E ++L ++ D+ +V ++K+ Y L +V+ +S HY TYR F G W DDE + ++F + PYILIYEKL Sbjct: 1 MHKNPKNISKTSCCNLLCSFTCRNKRPGSIYNTSSKCYMISVIQAIAASDILIAQFEDIYDKYPNCSSLGYLIDLLRGVIRKGRYKKNRSENTQILNQLILEIKWNKCSQQDAFEIMTAIWKSISDNLK-IYGKFFLPMKIKLIHSFKGIDVTNKIQNYLGLSLGLCGNYHERPGVILEYLIDQHFQPSLIDGNPNKTSNITIYEKAPEILLLHIQANKWDDFSGVMVKPIYYILYEENMTLWLDIAQDLMRNKVHRQKLVYNLKSVVSHSGNISQGHYVTYRTFRGKWFKVDDETVTEIQFDKKISPYILIYEKL 315
BLAST of SMED30013198 vs. Planmine SMEST
Match: SMESG000057791.1 (SMESG000057791.1) HSP 1 Score: 193.741 bits (491), Expect = 7.251e-59 Identity = 100/276 (36.23%), Postives = 164/276 (59.42%), Query Frame = 1 Query: 400 SIAQALASSTKIIEQFHEVKSHIPFCIALQILLELIAGLNQRFPFS-NLEENTNLIKKLAKNIKWSQKSQQDGYGLLSAIIQGIHQEMKEVKIEIEYPLRIDMVNKMSGLDTQNTIQSQIGLSIELAGPYNVYPGVTLDYLIQNHFSPFVIDGDPSSTSQVLFLSRTPTSLLFHIQLDKYHDKKQQTLRLDYFIAYSEFLSLEFNLVLDIDCGEVIKEKVDYKLVAVIERKEELSGSHYRTYRKFEGNWILADDERIIYVEFTCHVQPYILIYEKL 1224 S+ QA+A+S +I QF ++ P C +L L++L+ G+ ++ + N ENT ++ +L IKW++ SQQD + +++AI + I +K + + P++I +++ G+D N IQ+ +GLS+ L G Y+ PGV L+YLI HF P +IDG+P+ TS + + P LL HIQ +K+ D ++ Y+I Y E ++L ++ D+ +V ++K+ Y L +V+ +S HY TYR F G W DDE + ++F + PYILIYEKL Sbjct: 3 SVIQAIAASDILIAQFEDIYDKYPNCSSLGYLIDLLRGVIRKGRYKKNRSENTQILNQLILEIKWNKCSQQDAFEIMTAIWKSISDNLK-IYGKFFLPMKIKLIHSFKGIDVTNKIQNYLGLSLGLCGNYHERPGVILEYLIDQHFQPSLIDGNPNKTSNITIYEKAPEILLLHIQANKWDDFSGVMVKPIYYILYEENMTLWLDIAQDLMRNKVHRQKLVYNLKSVVSHSGNISQGHYVTYRTFRGKWFKVDDETVTEIQFDKKISPYILIYEKL 277
BLAST of SMED30013198 vs. Planmine SMEST
Match: SMESG000057804.1 (SMESG000057804.1) HSP 1 Score: 188.734 bits (478), Expect = 9.260e-56 Identity = 109/289 (37.72%), Postives = 168/289 (58.13%), Query Frame = 1 Query: 364 GLKKRNQECCINSIAQALASSTKIIEQFHEVKSHIPFC-IALQILLELIAGLNQRFPFSNLEENTNLIKKLAKNIKWSQKSQQDGYGLLSAIIQGIHQEMKEVK-IEIEYPLRIDMVNKMSGLDTQNTIQSQIGLSIELAGPYNVYPGVTLDYLIQNHFSPFVIDGDPSSTSQVLFLSRTPTSLLFHIQLDKYHDKKQQTLRLDYFIAYSEFLSLEFNLVLDIDCGEVIKE-KVDYKLVAVIERKEELSGSHYRTYRKFEGNWILADDERIIYVEFTCHVQPYILIYEK 1221 GLK + C +NS+ QALASS +I+ ++ + L I +EL+ +N SN++ N+ L+ KL I+W + QQD + LS I+ I +E++ +K EIE PL+ M+ G++ +N +Q G+ I L G ++ +PGV L+ LI ++F P ID +PS TSQ+ F PT LL HIQ +K+ + +Q+ ++ +Y+I Y L L NL + D G+ IKE + +Y+L AV+ +S HY YRK W L DE++ V+F C V PY+LI+EK Sbjct: 91 GLKNLDLICYMNSVIQALASSNHLIKMLKTLQQYTQNTENVLDIFIELLTDVNNSR--SNVDHNSKLLLKLIDKIEWQKFDQQDAFDFLSKIMSSIQKEVENIKGDEIEIPLKTKMIYIFKGIEMKNQVQYHFGIPIGLFGDFSNFPGVKLEDLINSYFDPVTIDDEPSKTSQIYFCKEAPTILLLHIQANKWDNDQQKMIKPEYYIQYHHKLGL--NLKISDDLGKEIKEGETNYELCAVVHHMGNISSGHYVVYRKCSTIWYLLSDEQVSQVKFDCDVCPYLLIFEK 375 The following BLAST results are available for this feature:
BLAST of SMED30013198 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30013198 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30013198 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30013198 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30013198 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30013198 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30013198 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30013198 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 1
BLAST of SMED30013198 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30013198 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30013198 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30013198 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30013198 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30013198 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 5
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30013198 ID=SMED30013198|Name=SMED30013198|organism=Schmidtea mediterranea sexual|type=transcript|length=1259bpback to top protein sequence of SMED30013198-orf-1 >SMED30013198-orf-1 ID=SMED30013198-orf-1|Name=SMED30013198-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=362bp MTPQLDGGIIAVTVILLIVLVGFCLFLYCVCNREDFERPNQHLYREISYKback 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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