SMED30010847
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., 2020SMED30010847 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 8
Alignments
SMED30010847 aligns in the following genomic locations:
Homology
BLAST of SMED30010847 vs. Planmine SMEST
Match: SMESG000026789.1 (SMESG000026789.1) HSP 1 Score: 729.939 bits (1883), Expect = 0.000e+0 Identity = 414/414 (100.00%), Postives = 414/414 (100.00%), Query Frame = 2 Query: 179 MIMNNHIFFMTIKDRIYCLTSSSILLPMSIFIGVTTFQNLDQNNQILEIYILIVRCAFSITGTIAGLLCTFVVVACPKRNXXXXXXXXXXXXXFGALITIATTIFSTDWADQRQSLTKTIFILTSILAFVSAVTICICLLNRFKKSDFRYDDPTECVEHASCILAALFIISAFTSIIGFTMGYTVSQQLVGVRILGGGSHSGIFGLLSTTLFILAICINXXXXXXXXXXXXXXXXXXXXXXXVSYYTEEMEYTQSLKYIEKNSILFYKSINLKLMLLTKHTLVLVTSVFNLVFAAPLTVXXXXXXXXXXXXXXRVNEEPNQPQHELNYTYQFSQLRTPLLHNCMQYSNIESSPTLPMNSNSRQKLISQVNIVENNAINFVNSNHQMRPVEPKTSNMNSNVQTCDLLKPLWQSSG 1420 MIMNNHIFFMTIKDRIYCLTSSSILLPMSIFIGVTTFQNLDQNNQILEIYILIVRCAFSITGTIAGLLCTFVVVACPKRNLSLITLLISILSTFGALITIATTIFSTDWADQRQSLTKTIFILTSILAFVSAVTICICLLNRFKKSDFRYDDPTECVEHASCILAALFIISAFTSIIGFTMGYTVSQQLVGVRILGGGSHSGIFGLLSTTLFILAICINKKLKLIFLSISLGLGILALVASSVSYYTEEMEYTQSLKYIEKNSILFYKSINLKLMLLTKHTLVLVTSVFNLVFAAPLTVLICCLLKDDLLITTRVNEEPNQPQHELNYTYQFSQLRTPLLHNCMQYSNIESSPTLPMNSNSRQKLISQVNIVENNAINFVNSNHQMRPVEPKTSNMNSNVQTCDLLKPLWQSSG Sbjct: 1 MIMNNHIFFMTIKDRIYCLTSSSILLPMSIFIGVTTFQNLDQNNQILEIYILIVRCAFSITGTIAGLLCTFVVVACPKRNLSLITLLISILSTFGALITIATTIFSTDWADQRQSLTKTIFILTSILAFVSAVTICICLLNRFKKSDFRYDDPTECVEHASCILAALFIISAFTSIIGFTMGYTVSQQLVGVRILGGGSHSGIFGLLSTTLFILAICINKKLKLIFLSISLGLGILALVASSVSYYTEEMEYTQSLKYIEKNSILFYKSINLKLMLLTKHTLVLVTSVFNLVFAAPLTVLICCLLKDDLLITTRVNEEPNQPQHELNYTYQFSQLRTPLLHNCMQYSNIESSPTLPMNSNSRQKLISQVNIVENNAINFVNSNHQMRPVEPKTSNMNSNVQTCDLLKPLWQSSG 414
BLAST of SMED30010847 vs. Planmine SMEST
Match: SMESG000030973.1 (SMESG000030973.1) HSP 1 Score: 207.608 bits (527), Expect = 7.907e-62 Identity = 165/412 (40.05%), Postives = 253/412 (61.41%), Query Frame = 2 Query: 191 NHIFFMTIKDRIYCLTSSSILLPMSIFIGVTTFQNLDQNNQILEIYILIVRCAFSITGTIAGLLCTFVVVACPKRNXXXXXXXXXXXXXFGALITIATTIFSTDWADQRQSLTKTIFILTSILAFVSAVTICICLLNRFKKSDFRYDD-PTECVEHASCILAALFIISAFTSIIGFTMGYTVSQQLVGVRILGGGSHSGIFGLLSTTLFILAICINXXXXXXXXXXXXXXXXXXXXXXXVSYYTEEMEYTQSLKYIEKNSILF-----YKSINLKLMLLTKHTLVLVTSVFNLVFAAPLTVXXXXXXXXXXXXXXRVNEEPNQPQHELNYTYQFSQLRTPLLHNCMQYSNIESSPTLPMNSNS-RQKLISQVNIVENNAINFVNSNHQMRPVEPKTSNMNSNVQTCDLLKPL 1405 N+ FF+TI DR+ CL S++ILLPMS+FI T + L + ++YI+ ++ SI+G + +L FV +ACP R +S+ +++S +S FG ++++AT F +W ++++K +FI+TS L V +V I + + RFK S F +D T +E S ILA L II++FTSI GF MGY + QL+ RI GGG HSGI GLLS+ +F+ AI K + LSIS+G+ ILAL++ ++SYYTEE+E S+++I K+ +LF Y+ K++L+TK TL+L++S+F LVF PLTV CCLLK DLLI + N+ ++++ S + P L+N + +ES TL NS + + +S +N V N V S + +R +P +S ++ CDLLK + Sbjct: 6 NNRFFLTIHDRVCCLLSAAILLPMSLFIIAVTIRQLSTISSTEDVYIVSIKSLSSISGILTAILSIFVSIACPYRRISITNIVLSTISAFGIMMSLATIFFHANWNGHHEAVSKVVFIITSSLCLVCSVVITMRIALRFK-SQFVFDSIQTTFLEQCSIILATLLIIASFTSISGFVMGYIIKWQLLIDRIFGGGLHSGIMGLLSSLVFLAAIYGGPKSRFSLLSISMGVSILALISLAISYYTEEIEIDHSIQFISKHQLLFIVPNYYR----KVLLMTKSTLILISSIFGLVFGTPLTVATCCLLKRDLLIQPELMNIRNEC--DIDFMCSPSINQDPFLYNAPPH--VESMKTLYNNSFTLKPHFMSTLNSVYCPP-NTVESINMLRS-QPMSSPNSTKEDVCDLLKEI 406
BLAST of SMED30010847 vs. Planmine SMEST
Match: SMESG000050120.1 (SMESG000050120.1) HSP 1 Score: 115.931 bits (289), Expect = 2.626e-28 Identity = 97/305 (31.80%), Postives = 181/305 (59.34%), Query Frame = 2 Query: 179 MIMNNHIFFMTIKDRIYCLTSSSILLPMSIFIGVTTFQ--NLDQNNQILEIYILIVRCAFSITGTIAGLLCTFVVVACPKRNXXXXXXXXXXXXXFGALITIATTIFSTDWADQRQSLTKTIFILTSILAFVSAVTICICLLNRFKKSDF--RYDDPTECVEHASCILAALFIISAFTSIIGFTMGYTVSQQLVGVR-ILGGGSHSGIFGLLSTTLFILAICI-NXXXXXXXXXXXXXXXXXXXXXXXVSYYTEEMEYTQSLKYIEKNSILFYKSINLKLMLLTKHTLVLVTSVFNLVFAAPLTV 1075 M++ + + F++ I CL +SSIL+P SIF+ +T + +LDQ ++ +Y+L V+ A S G LL V PK+ + I +++ ILS+FGA+++I+T F ++W +++ +F++ I+ ++A+ + I + RFK D Y + + + +++AL ++++ TS IGF +G V+ QL+ ++GGG +SG G+L L++ + + K +L+ I + LG+L V + S++TEE+E +++YI+ N +L + I+ K++LL K TLV+++S+F VF P+ V Sbjct: 1 MVIFSSMSFLSPVGSIICLYTSSILMPASIFVLSSTVRQVSLDQLRDVMTLYVLGVKVATSFLGISTSLLAHVTAVFWPKKLICWILMIMGILSSFGAMMSISTIFFKSNWNSHIEAMRHIMFLVAEIVIMITAMVLSIKIALRFKSPDEYENYYNGESFIIISGVLISALLLLASITSFIGFIIGIYVNTQLLRESTVVGGGLYSGFLGILIGILYLSGVKLCKLKAQLVMHPIIIMLGVLDFVGAITSFFTEELELAATIEYIKNNQLLSNEYIHYKILLLCKSTLVMLSSLFMAVFICPMIV 305 The following BLAST results are available for this feature:
BLAST of SMED30010847 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30010847 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30010847 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30010847 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30010847 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30010847 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30010847 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30010847 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30010847 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30010847 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30010847 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30010847 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30010847 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30010847 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 >SMED30010847 ID=SMED30010847|Name=SMED30010847|organism=Schmidtea mediterranea sexual|type=transcript|length=1447bpback to top protein sequence of SMED30010847-orf-1 >SMED30010847-orf-1 ID=SMED30010847-orf-1|Name=SMED30010847-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=415bp MIMNNHIFFMTIKDRIYCLTSSSILLPMSIFIGVTTFQNLDQNNQILEIYback to top protein sequence of SMED30010847-orf-2 >SMED30010847-orf-2 ID=SMED30010847-orf-2|Name=SMED30010847-orf-2|organism=Schmidtea mediterranea sexual|type=polypeptide|length=148bp VEIESFSTTIRQELRFIISVLRSFVYESEIPKTITVSIGNREKERQRDRKback 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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