SMED30017226
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., 2020SMED30017226 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 7
Alignments
SMED30017226 aligns in the following genomic locations:
Homology
BLAST of SMED30017226 vs. Planmine SMEST
Match: SMESG000026752.1 (SMESG000026752.1) HSP 1 Score: 905.59 bits (2339), Expect = 0.000e+0 Identity = 477/477 (100.00%), Postives = 477/477 (100.00%), Query Frame = 3 Query: 189 KPQVSKNMNIFQTIVVGLSIAAVLGNLYLFCKNQVLFEKSEFKNKIILCSTYVIGLVGVVNAIYEINYETYRDITYFIDKLVXXXXXXXXXXXXXXSDWMPHIQRPQVDDNDYKKRVFRINYLISLFGTICLVGCFIIFGRIIAIKERKILTMTENINSSSLSCLSFKDHIKIEVTEILDYFLENYFIISSVFIFVYLRFISRQIRDIHEELAYQQNVDPDVGRVLPNDNERPHLETNDPIRSDQTNESLNERTPLVNITDPPRKCCNKQIILSAIVSGXXXXXXXXXXXXXXXXYDFIHIAYQAINIVVHLLLIGAISMCWHQILYWNNKKSSILQLDNLFLKIGTFGQVLNGCLVLISAFYVESYGNCGGSAVSINALWATSNFLQIFQSIFQMYLIHEISKRSVIENALEHLKPLTLFLCVTNLSFALENLTMKPMTMTVYDKAWIVADMLINPMKFINRLHAFAFFANILAKQ 1619 KPQVSKNMNIFQTIVVGLSIAAVLGNLYLFCKNQVLFEKSEFKNKIILCSTYVIGLVGVVNAIYEINYETYRDITYFIDKLVIIIFAILLAIYLYISDWMPHIQRPQVDDNDYKKRVFRINYLISLFGTICLVGCFIIFGRIIAIKERKILTMTENINSSSLSCLSFKDHIKIEVTEILDYFLENYFIISSVFIFVYLRFISRQIRDIHEELAYQQNVDPDVGRVLPNDNERPHLETNDPIRSDQTNESLNERTPLVNITDPPRKCCNKQIILSAIVSGFFLIFLNNLNFLKILKYDFIHIAYQAINIVVHLLLIGAISMCWHQILYWNNKKSSILQLDNLFLKIGTFGQVLNGCLVLISAFYVESYGNCGGSAVSINALWATSNFLQIFQSIFQMYLIHEISKRSVIENALEHLKPLTLFLCVTNLSFALENLTMKPMTMTVYDKAWIVADMLINPMKFINRLHAFAFFANILAKQ Sbjct: 36 KPQVSKNMNIFQTIVVGLSIAAVLGNLYLFCKNQVLFEKSEFKNKIILCSTYVIGLVGVVNAIYEINYETYRDITYFIDKLVIIIFAILLAIYLYISDWMPHIQRPQVDDNDYKKRVFRINYLISLFGTICLVGCFIIFGRIIAIKERKILTMTENINSSSLSCLSFKDHIKIEVTEILDYFLENYFIISSVFIFVYLRFISRQIRDIHEELAYQQNVDPDVGRVLPNDNERPHLETNDPIRSDQTNESLNERTPLVNITDPPRKCCNKQIILSAIVSGFFLIFLNNLNFLKILKYDFIHIAYQAINIVVHLLLIGAISMCWHQILYWNNKKSSILQLDNLFLKIGTFGQVLNGCLVLISAFYVESYGNCGGSAVSINALWATSNFLQIFQSIFQMYLIHEISKRSVIENALEHLKPLTLFLCVTNLSFALENLTMKPMTMTVYDKAWIVADMLINPMKFINRLHAFAFFANILAKQ 512
BLAST of SMED30017226 vs. Planmine SMEST
Match: SMESG000027067.1 (SMESG000027067.1) HSP 1 Score: 501.901 bits (1291), Expect = 2.908e-174 Identity = 312/518 (60.23%), Postives = 380/518 (73.36%), Query Frame = 3 Query: 78 MAIHIEDHLIPVXXXXXXXXXXXXXXXXXXXXXXXXXKPQVSKNMNIFQTIVVGLSIAAVLGNLYLFCKNQVLFEKSEFKNKIILCSTYVIGLVGVVNAIYEINYETYRDI-TYFIDKLVXXXXXXXXXXXXXXSDWMPHIQRPQVDDNDYKKRVFRINYLISLFGTICLVGCFIIFGRIIAIKERKILTMTENINSSSLSCLSFKDHIKIEVTEILDYFLENYFIISSVFIFVYLRFISRQIRDIHEELAYQQNVDPDVGRVLPNDNERPHLETNDPIRSDQTNESLNE-RTPLV-NITDPPRKCCNKQIILSAIVSGXXXXXXXXXXXXXXXXYDF--IHIAYQAINIVVHLLLIGAISMCWHQILYWNNKKSSILQLDNLFLKIGTFGQVLNGCLVLISAFYVESYGNCGGSAVSINALWATSNFLQIFQSIFQMYLIHEISKRSVIENALEHLKPLTLFLCVTNLSFALENLTMKPMTMTVYDKAWIVADMLINPMKFINRLHAFAFFANILAK 1616 MAIHIEDHLIPVELIKSLKYFLLLLIFSS+ YE F S+P+V MNIFQT++V +SI+A+LGN L +N+ F KNK++LCS VIGL GVV ++YE++ E I ++F+D++ II FAILLA+YLY SDW+P IQRP +D+N +RINY LFGTICL+GCF+IFGRIIAIKER+ L MT N N SC S+KD K++V +I + FL NYFIIS V +++YLRFISRQIRD+HEE A HLE + PIR DQ NE N+ R+PL+ N +P ++CCNKQIILSA++S FLI LN LN I D IHIAYQA+ I+++LL IG + W Q+L W + + +LQ+DNLFLKIGTFGQ LNGCLVLISAFYV + +C + IN LWATSNF+QIFQSIFQMYLI EIS RSV A H KPL LFLCV NLSFALENL MKPMT+ +Y+KAW+VADMLINP++FINRLHAFAFFANILA+ Sbjct: 1 MAIHIEDHLIPVELIKSLKYFLLLLIFSSAFYEFFFSQPKVELTMNIFQTVIVAISISAILGNFVLLRQNRDQFYYKGCKNKVVLCSNCVIGLSGVVYSMYELHKENNNLINSHFVDQIFIIAFAILLALYLYSSDWIPDIQRPLLDNNFSGICTYRINYWSCLFGTICLIGCFVIFGRIIAIKERQTLNMTVNRNRDFFSCPSYKDPKKLDVKKIFENFLLNYFIISFVLVYIYLRFISRQIRDLHEEWA--------------------HLEADHPIRFDQPNEDPNDVRSPLITNNRNPFKRCCNKQIILSAVISISFLISLNTLNIFLIYSDDKVKIHIAYQAVKIIIYLLFIGTFILLWCQLLKWRIEITPLLQIDNLFLKIGTFGQALNGCLVLISAFYVIVHKDCDRTVKYINVLWATSNFMQIFQSIFQMYLIREISNRSVTRVASVHWKPLALFLCVMNLSFALENLIMKPMTIQMYNKAWVVADMLINPLRFINRLHAFAFFANILAE 498
BLAST of SMED30017226 vs. Planmine SMEST
Match: SMESG000071516.1 (SMESG000071516.1) HSP 1 Score: 56.9954 bits (136), Expect = 2.492e-8 Identity = 57/191 (29.84%), Postives = 89/191 (46.60%), Query Frame = 3 Query: 1083 IHIAYQAINIVVHLLLIGAISMCW-HQILYWNNKKSSILQLDNLFLKIGTFGQVLNGCLVLISAFYVESYGNCGGSAVSINALWATSNFLQIFQSIFQMYLIHEISKRSVIE-----NALEHLKPLTL----FLCVTNLSFALENL-----TMKPMTMTVYDKAWIVADMLINPMKFINRLHAFAFFANIL 1610 I + Y I V+++LI ISM + H+I W +K+ D + IGTFGQV+ I+ YV + L N LQI Q + Q ++I EI +R V + + +T+ LC+ NL F L N+ M + M+ + WI+ ++ + +NRLH FAFF ++L Sbjct: 293 ILVFYNECQISVYVILI-IISMLYLHKIFQWKFEKNIRSNNDCWIVNIGTFGQVMEA----ITISYVSFIKLSDDCHLKFLYLSIVLNILQIIQIVGQRFVILEILQRKVKKLRSRNYETNFFRRITINHCAVLCIANLGFVLINILHYSQAMDKIQMS-KGRTWILIRCILVLISTLNRLHGFAFFLDVL 477 The following BLAST results are available for this feature:
BLAST of SMED30017226 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30017226 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30017226 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30017226 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30017226 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30017226 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30017226 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30017226 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30017226 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30017226 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30017226 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30017226 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30017226 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30017226 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 >SMED30017226 ID=SMED30017226|Name=SMED30017226|organism=Schmidtea mediterranea sexual|type=transcript|length=1634bpback to top protein sequence of SMED30017226-orf-1 >SMED30017226-orf-1 ID=SMED30017226-orf-1|Name=SMED30017226-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=540bp ESRALNVTTFKQKRLLIIKLLQNFEMAIHIEDHLIPVELIKSLKYFLLLLback 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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