SMED30023613
Overview
Neoblast Clusters
Zeng et. al., 2018▻ Overview▻ Neoblast 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
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., 2020SMED30023613 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 7
Alignments
SMED30023613 aligns in the following genomic locations:
Homology
BLAST of SMED30023613 vs. TrEMBL
Match: A0A2C9JH44 (DDE_Tnp_IS1595 domain-containing protein OS=Biomphalaria glabrata OX=6526 GN=106059660 PE=4 SV=1) HSP 1 Score: 77.7962 bits (190), Expect = 2.503e-17 Identity = 59/217 (27.19%), Postives = 98/217 (45.16%), Query Frame = -2 Query: 629 RLLRNC---CTCVTCNIPCTS-QAENRETEKYV*KCKA*KNVSCIIRNESFLFNSYLYLQSFIFLCFQ*SRETPIHLVCKDISVSRRVDVDWYNFIRGITCK*FENNTPXX--XXXXXXXXXXXXLPKESSEKADYKKPVWLFGGVQRGTKNCFLQVILNRQIQTLMPLIARHIFPGIHIMSDCLTIYQQLGNFRGL--------NNLQNFVHPGNA 1237 R+LR C C T + +R+ KY +C + K +R +SFL S L L+ FI+L + S+ + +V + + S VDW+N+ R I C+ + P ++++ + + K + P W+FGG+ T N F+ + +R TL+P+I ++I PG I SD Y + + L N+ NFV P Sbjct: 41 RILRRTAPNCPLPECGREMTEINSADRKDGKYY-RCPSHKGKKLSLREDSFLSQSQLSLEEFIWLVYFWSKSSSNAMVMETLKFSSGTVVDWFNYFRNI-CRRYLTLHPIRIGGVGHVVEIDESVVAKRKYHVGRHVPPKWVFGGIDTTTDNGFMVFVEDRSANTLLPIIEQYIEPGTMIHSDAWAAYNGIAHLPVLPPYQHNVVNHSTNFVDPATG 255 HSP 2 Score: 41.2022 bits (95), Expect = 2.503e-17 Identity = 18/38 (47.37%), Postives = 27/38 (71.05%), Query Frame = -3 Query: 514 SSTESVETMWFRLKRKFKRMNGTPYEMLNSYISEFICR 627 ++T VE MW +K+K KRM+GT ++L S+I EF+ R Sbjct: 256 ATTNHVERMWKSMKQKLKRMSGTSDDLLQSHIDEFLWR 293
BLAST of SMED30023613 vs. TrEMBL
Match: W4Z0I9 (DDE_Tnp_IS1595 domain-containing protein OS=Strongylocentrotus purpuratus OX=7668 PE=4 SV=1) HSP 1 Score: 91.6633 bits (226), Expect = 1.138e-16 Identity = 73/289 (25.26%), Postives = 124/289 (42.91%), Query Frame = -2 Query: 560 AGRPSAPTLIVSAEGILSHEAIQNEVWATLIIVPLIVEPLQCIK*LITHRLLRNCCTCVTCNIPCTSQAENRETEKYV*KCKA*KNVSCIIRNESFLFNSYLYLQSFIFLCFQ*SRETPIHLVCKDISVSRRV-DVDWYNFIRGITCK*FENNTPXXXXXXXXXXXXXXLPKESS------EKADYKKPVWLFGGVQRGTKNCFLQVILNRQIQTLMPLIARHIFPGIHIMSDCLTIYQQLGNFRG---LNNL----QNFVHPGNAFVHRVCRNYVVST*TKIQENEWN 1384 AGRP APT I+ + I+ I +P + ++ L + L+ N C C+ PC A + + KC + + R+ SF S++ L+ + + + + P++ + + +S V V+W N +R + + N + ES + Y++ W+FG V+R T C L+++ NR TL P+I+R + PG HI+SD YQQL G L+++ NFV P + ++H T E +WN Sbjct: 2 AGRPRAPTRIIPIQNIMPIAEIIAADILLRDFMPGLATVEDTLRWLASRSLIANSHLCAWCHEPCGLVAHQGIDKVW--KCLQCRRRKSV-RHGSFFSRSHICLRDLLIFIYLWAEDLPLNFIARQSGLSTDVTSVNWANMLREVCGQELMANFRQLGGFDENGQATVVEIDESKYFHRKYHRGAYREGFWVFGAVERATGRCQLEIVPNRTRATLEPIISRWLLPGTHILSDGWRSYQQLDQLDGGVYLHDVVIHEDNFVDPVHEWLH-----------TNTIEGKWN 276
BLAST of SMED30023613 vs. TrEMBL
Match: A0A0L8G5T0 (DDE_Tnp_IS1595 domain-containing protein OS=Octopus bimaculoides OX=37653 GN=OCBIM_22039914mg PE=4 SV=1) HSP 1 Score: 91.2781 bits (225), Expect = 1.674e-16 Identity = 71/250 (28.40%), Postives = 107/250 (42.80%), Query Frame = -2 Query: 683 MPAGRPSAPTLIVSAEGILSHEAIQNEVWATLIIVPLIVEPLQCIK*LITHRLLRNCCTCVTCNIPCTSQAENRETEKYV*KCKA*KNVSCIIRNESFLFNSYLYLQSFIFLCFQ*SRETPIHLVCKDISVSRRVDVDWYNFIRGITCK*FE-------NNTPXXXXXXXXXXXXXXLP-------KESSEKADYKKPVWLFGGVQRGTKNCFLQVILNRQIQTLMPLIARHIFPGIHIMSDCLTIYQQL 1390 MP GRPS P I + I+ E I+ E W + I I L ++L+ N C C PCT R + +C N S IR SF S+L L +FI+L + SR+ + + +V++ D + IR + + E ++ P+ L + + K + +KK W+FGG++RGT CFL I + + I R I PG HI+SD Y Q+ Sbjct: 5 MPRGRPSNPKTICA--DIVDDEKIRQESWTFYDLFKQISTNDIAITWLAKYKLISNSVICSVCGNPCTINVIKRSIDGIRWRCPQ-HNFSRSIRKGSFFEKSHLSLTTFIWLMYMWSRDYQHTEMTHETNVNKNSTTDMFRLIRELLERFLEDHPTELGDDPPEIGGFDLQTGEPKVVEIDVTKCVKSKRNEKKHKKEFWIFGGIERGTDKCFLVPIEYQNKEAFEAAIIRWILPGTHIVSDIWAEYLQI 251
BLAST of SMED30023613 vs. TrEMBL
Match: A0A0L8FW94 (DDE_Tnp_IS1595 domain-containing protein OS=Octopus bimaculoides OX=37653 GN=OCBIM_22006020mg PE=4 SV=1) HSP 1 Score: 71.633 bits (174), Expect = 1.847e-15 Identity = 70/265 (26.42%), Postives = 103/265 (38.87%), Query Frame = -2 Query: 623 MPAGRPSAPTLIVSAEGILSHEAIQNEVWATLIIVPLIVEPLQCIK*LITHRLLRNCCTCVTCNIPC---TSQAENRETEKYV*KCKA*KNVSCIIRNESFLFNSYLYLQSFIFLCFQ*SRETPIHLVCKDISVSRRVDVDWYNFIRGITCK*FENNTPXXXXXXXXXXXXXXLPKESS------EKADYKKPVWLFGGVQRGTKNCFLQVILNRQIQTLMPLIARHIFPGIHIMSDCLTIYQQLGNFRGLNNLQNFVHPGNAFV 1390 MP GRP+A LIV+ IL+ + I E W + + ++ RL+RN TC C +PC T E Y C+ K+V R SF S++ L + L + +E + + S+S VDW NF R + + N + ES + ++ W+FGGV+R + CFL IL PG HI+SD Y + N G + G+ FV Sbjct: 1 MPRGRPAAQHLIVAENEILNRQLILEEKWNIRELCSSSRHRM--LEWCARRRLIRNKFTCDDCLVPCGLVTRGDRIDGKEWYCKHCEKKKSV----RYSSFFERSHIPLYHLVLLIYCWCKEIMQKYIVDESSLSHTSVVDWNNFCREVCDEWLRQNPMEIGGVDNNGQPLVVEIDESKFFHRTYHRGLWRPGHWVFGGVERDSGKCFLVEIL----------------PGTHIISDRWASYANITNLGGCIYTHEVIVHGDHFV 243 HSP 2 Score: 41.2022 bits (95), Expect = 1.847e-15 Identity = 20/51 (39.22%), Postives = 33/51 (64.71%), Query Frame = -3 Query: 484 EMHSSTESVETMWFRLKRKFKRMNGTPYEMLNSYISEFICRNNFVRQILYV 636 E+H T+++E +W RLKRK + GT E+ SY+ EF+ RN+ ++ +V Sbjct: 249 EIH--TQNIENLWMRLKRKLRWQYGTSDELFLSYLHEFLWRNSIPKEKTFV 297
BLAST of SMED30023613 vs. TrEMBL
Match: A0A1X7SZA3 (DDE_Tnp_IS1595 domain-containing protein OS=Amphimedon queenslandica OX=400682 GN=109590640 PE=4 SV=1) HSP 1 Score: 85.1149 bits (209), Expect = 1.381e-14 Identity = 56/187 (29.95%), Postives = 91/187 (48.66%), Query Frame = -2 Query: 692 LITHRLLRNCCTCVTCNIPCTSQAENRETEKYV*KCKA*KNVSCIIRNESFLFNSYLYLQSFIFLCFQ*SRETPIHLVCKDISVSRRVDVDWYNFIRGITCK*FENN-TPXXXXXXXXXXXXXXLPKESSEKADYKKPVWLFGGVQRGTKNCFLQVILNRQIQTLMPLIARHIFPGIHIMSDCLTIY 1249 L + L+ N C C C ++T+ + K ++V IRNESF S+L L + L + S ++ +H + S VDW+NF+R I F +N T ++++ K K + Y W+FGG++RGT NCF+ + +R TL+P+I +++ PG I+SD Y Sbjct: 21 LRSKHLIANYMDCKKCGSSC-RLVTKKDTKVWRCPLKGCQSV-ISIRNESFFSGSHLKLNEIVDLIYWWSCKSTVHATMHETGHSEHTIVDWFNFLRDICADYFLSNPTVIGGPGSVIEIDKSKFGKRKYNRGRYVDGHWVFGGIERGTSNCFMVAVADRSAATLLPIIYKYVRPGSTIISDQWRAY 205 The following BLAST results are available for this feature:
BLAST of SMED30023613 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30023613 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30023613 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30023613 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30023613 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30023613 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30023613 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30023613 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 5
BLAST of SMED30023613 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30023613 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30023613 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30023613 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30023613 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30023613 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 0
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30023613 ID=SMED30023613|Name=SMED30023613|organism=Schmidtea mediterranea sexual|type=transcript|length=1469bpback to top protein sequence of SMED30023613-orf-1 >SMED30023613-orf-1 ID=SMED30023613-orf-1|Name=SMED30023613-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=102bp MKQSLPKESSEKADYKKPVWLFGGVQRGTKNCFLQVILNRQIQTLMPLIAback to top Annotated Terms
The following terms have been associated with this transcript:
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