SMED30012151
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., 2020SMED30012151 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 3
Alignments
SMED30012151 aligns in the following genomic locations:
Homology
BLAST of SMED30012151 vs. Planmine SMEST
Match: SMESG000021151.1 (SMESG000021151.1) HSP 1 Score: 145.591 bits (366), Expect = 2.783e-60 Identity = 102/163 (62.58%), Postives = 127/163 (77.91%), Query Frame = -1 Query: 1144 EKIKAT*CSSEATEEQFKKIT*LSRARDDLIIETRSQQITISDQSAALQQIFMKKKFQARLPSRSLAQQINIIPANHLPGNAKNQSISNVNNTFTAGISXXXXXXXXXXXXXXXXXXXXXNALLQENLRTYGHSEQQEIPDSISLEHTAHRFDDDLYII*APV 1632 EKIK T CS +AT+E KKIT LSR RDDL+IETRSQQ+TIS+QSAAL+QIF +K+ QARLPSR+LAQQINIIPA+HLP NA+NQ+I+ N+T GIS ANRRHK NRNRR+RQRRRA+N LL NLR+ + + E+ DS ++E +D + II AP+ Sbjct: 37 EKIKGTWCSPDATKELHKKITSLSRDRDDLVIETRSQQVTISEQSAALRQIFTEKELQARLPSRNLAQQINIIPAHHLPTNAENQAINQDNSTPEDGISHANRRHKPNRNRRQRQRRRAENTLLLANLRSDEYPDVTEVLDSTTIERAISGYDKE--IIYAPL 197 HSP 2 Score: 72.4034 bits (176), Expect = 2.783e-60 Identity = 41/68 (60.29%), Postives = 50/68 (73.53%), Query Frame = -3 Query: 908 SPINIHIATTARAMLEE-GQSSGQSSPLIISVVKPDSRR--------QSTPRPLSRCPQRRCLPVDID 1084 SPI+I+IATT+RAMLEE GQSSG+SSPLII V +P + + Q P +RCP+RRCLPVDID Sbjct: 200 SPIHINIATTSRAMLEEEGQSSGRSSPLIILVTEPTAPQEQMAGFPQQPESHPTARCPKRRCLPVDID 267 HSP 3 Score: 55.8398 bits (133), Expect = 2.783e-60 Identity = 26/34 (76.47%), Postives = 29/34 (85.29%), Query Frame = -3 Query: 1628 INLPRILRIVPAPYAVAMNQRLSKLERENFIPRK 1729 +NLP I+RIV APYAVAMNQRL LERENFI R+ Sbjct: 1 MNLPSIIRIVRAPYAVAMNQRLESLERENFIIRE 34
BLAST of SMED30012151 vs. Planmine SMEST
Match: SMESG000011251.1 (SMESG000011251.1) HSP 1 Score: 177.948 bits (450), Expect = 2.526e-51 Identity = 117/171 (68.42%), Postives = 137/171 (80.12%), Query Frame = -1 Query: 1120 EKIKAT*CSSEATEEQFKKIT*LSRARDDLIIETRSQQITISDQSAALQQIFMKKKFQARLPSRSLAQQINIIPANHLPGNAKNQSISNVNNTFTAGISXXXXXXXXXXXXXXXXXXXXXNALLQENLRTYGHSEQQEIPDSISLEHTAHRFDDDLYII*APVQLEFSHPA 1632 EKIK T CS EAT+E +KKIT LSRARDDLIIETRSQ+ITIS+++AAL+QIF K+ QARLPSR+LAQQINIIPA+HLPGNA+NQS SNVN+T GISQANRRHK NRNRRRRQ+RRA+ LLQ NLR+ G+ E EI DS+ +E FD++ II AP Q F HPA Sbjct: 37 EKIKGTWCSPEATKELYKKITRLSRARDDLIIETRSQRITISEKNAALRQIFTVKELQARLPSRTLAQQINIIPAHHLPGNAENQSFSNVNSTSADGISQANRRHKPNRNRRRRQKRRAEKPLLQANLRSDGYRESAEILDSMPMERAFPHFDEE--IIYAPTQPIFLHPA 205 HSP 2 Score: 45.0542 bits (105), Expect = 2.526e-51 Identity = 22/31 (70.97%), Postives = 24/31 (77.42%), Query Frame = -3 Query: 1637 INLPRILRIVPAPYAVAMNQRLSKLERENFI 1729 + +PRI RIV AP AVAMNQRL LEREN I Sbjct: 1 MTMPRIPRIVLAPSAVAMNQRLENLERENLI 31
BLAST of SMED30012151 vs. Planmine SMEST
Match: SMESG000011251.1 (SMESG000011251.1) HSP 1 Score: 177.563 bits (449), Expect = 3.208e-51 Identity = 117/171 (68.42%), Postives = 137/171 (80.12%), Query Frame = -1 Query: 1120 EKIKAT*CSSEATEEQFKKIT*LSRARDDLIIETRSQQITISDQSAALQQIFMKKKFQARLPSRSLAQQINIIPANHLPGNAKNQSISNVNNTFTAGISXXXXXXXXXXXXXXXXXXXXXNALLQENLRTYGHSEQQEIPDSISLEHTAHRFDDDLYII*APVQLEFSHPA 1632 EKIK T CS EAT+E +KKIT LSRARDDLIIETRSQ+ITIS+++AAL+QIF K+ QARLPSR+LAQQINIIPA+HLPGNA+NQS SNVN+T GISQANRRHK NRNRRRRQ+RRA+ LLQ NLR+ G+ E EI DS+ +E FD++ II AP Q F HPA Sbjct: 35 EKIKGTWCSPEATKELYKKITRLSRARDDLIIETRSQRITISEKNAALRQIFTVKELQARLPSRTLAQQINIIPAHHLPGNAENQSFSNVNSTSADGISQANRRHKPNRNRRRRQKRRAEKPLLQANLRSDGYRESAEILDSMPMERAFPHFDEE--IIYAPTQPIFLHPA 203
BLAST of SMED30012151 vs. Planmine SMEST
Match: SMESG000055478.1 (SMESG000055478.1) HSP 1 Score: 162.155 bits (409), Expect = 3.956e-46 Identity = 122/202 (60.40%), Postives = 140/202 (69.31%), Query Frame = -1 Query: 1033 EKIKAT*CSSEATEEQFKKIT*LSRARDDLIIETRSQQITISDQSAALQQIFMKKKFQARLPSRSLAQQINIIPANHLPGNAKNQSISNVNNTFTAGISXXXXXXXXXXXXXXXXXXXXXNALLQENLRTYGHSEQQEIPDSISLEHTAHRFDDDLYII*APVQLEFSH--PAQPKLRSMQMPMSRQSTSTSRLLPVLCWRK 1632 EK+K T CS EAT+EQ+KKIT LSRARDDLIIETRSQ+ITIS+Q+AA +QIF +K+ QARLPSR+L QQINII A HLP NA+N I+ +N GI NRRHK NRNRR RQRRRA+NALLQ NLR G E +EI D +S + R DDDL II AP Q EF H PAQ + S S Q T TS LL W K Sbjct: 37 EKLKGTWCSPEATKEQYKKITRLSRARDDLIIETRSQRITISEQTAAFRQIFTEKELQARLPSRNLVQQINIIQAYHLPINAENSPINYDSNIPADGILHVNRRHKSNRNRRWRQRRRAENALLQANLRNDGLPELREIQDLVSTKQATPRHDDDLDIIYAPFQPEFFHSTPAQITITSHGH-ESPQLTYTSPLLLERFWMK 237 HSP 2 Score: 43.1282 bits (100), Expect = 3.956e-46 Identity = 22/34 (64.71%), Postives = 26/34 (76.47%), Query Frame = -3 Query: 1628 INLPRILRIVPAPYAVAMNQRLSKLERENFIPRK 1729 +NLP I RIV AP AVAM QRL KL+ ENF+ R+ Sbjct: 1 MNLPSIPRIVLAPSAVAMTQRLEKLKWENFVLRE 34
BLAST of SMED30012151 vs. Planmine SMEST
Match: SMESG000046646.1 (SMESG000046646.1) HSP 1 Score: 117.857 bits (294), Expect = 8.208e-41 Identity = 91/178 (51.12%), Postives = 118/178 (66.29%), Query Frame = -1 Query: 1120 FREK---IKAT*CSSEATEEQFKKIT*LSRARDDLIIETRSQQITISDQSAALQQIFMKKKFQARLPSRSLAQQINIIPANHLPGNAKNQSISNVNNTFT--AGISXXXXXXXXXXXXXXXXXXXXXNALLQENLRTYGHSEQQEIPDSISLEHTAHRFDDDLYII*APVQLEFSHPA 1638 REK +K T CS E T E++KKI LSRARDDLIIE RSQ+I IS + AA +QIF +K+ QARLPSR++ Q+++IIP +HLP N KNQ +N N T S N+RH+ NRNRRRRQRR+A+NALLQ NL ++ + I + + A +DL +I AP Q +FS PA Sbjct: 32 LREKYNRLKVTWCSPEITRERYKKINRLSRARDDLIIENRSQRIMISYECAAFRQIFTEKEKQARLPSRNMTQRLDIIPVHHLPTNPKNQRDNNNKNVPTKLTTPSTVNQRHRPNRNRRRRQRRKAENALLQSNLGVRENASLESITELFWPQPIALNDGEDLGVIDAPRQPDFSQPA 209 HSP 2 Score: 45.8246 bits (107), Expect = 8.208e-41 Identity = 34/85 (40.00%), Postives = 49/85 (57.65%), Query Frame = -3 Query: 902 CPAQITINANAH--ESPINIHIATTARAMLE-EGQSSGQSSPLIISVVKP----DSRRQSTPRP----LSRCPQRRCLPVDIDKE 1123 PAQI I + + E IN+ I+ +R + + SSG+SSP IISV++P R + PR +R P+R+ LPVDID+E Sbjct: 211 IPAQINITMDNYSAEMLINMQISIASRTTPDRDAISSGRSSPQIISVIEPTINRSQRSDNLPRAPSSSTTRPPKRKYLPVDIDEE 295 HSP 3 Score: 44.2838 bits (103), Expect = 8.208e-41 Identity = 23/39 (58.97%), Postives = 27/39 (69.23%), Query Frame = -3 Query: 1613 INLPRILRIVPAPYAVAMNQRLSKLERENFIPRKNQSHL 1729 +NLPRI +I PAP AVA Q L KLERENF R+ + L Sbjct: 1 MNLPRIPKISPAPSAVAEAQYLEKLERENFTLREKYNRL 39 The following BLAST results are available for this feature:
BLAST of SMED30012151 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30012151 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30012151 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30012151 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30012151 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30012151 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30012151 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30012151 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30012151 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30012151 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30012151 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30012151 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30012151 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30012151 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 >SMED30012151 ID=SMED30012151|Name=SMED30012151|organism=Schmidtea mediterranea sexual|type=transcript|length=2025bpback to top protein sequence of SMED30012151-orf-1 >SMED30012151-orf-1 ID=SMED30012151-orf-1|Name=SMED30012151-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=108bp MKKKFQARLPSRSLAQQINIIPANHLPGNAKNQSISNVNNTFTAGISQANback to top protein sequence of SMED30012151-orf-2 >SMED30012151-orf-2 ID=SMED30012151-orf-2|Name=SMED30012151-orf-2|organism=Schmidtea mediterranea sexual|type=polypeptide|length=140bp MSTGKHRRWGHRDNGRGVDWRRESGFTTEIIRGDDCPLDCPSSSIARAVVback 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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