SMED30003100
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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., 2020SMED30003100 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 1
Alignments
SMED30003100 aligns in the following genomic locations:
Homology
BLAST of SMED30003100 vs. Planmine SMEST
Match: SMESG000027093.1 (SMESG000027093.1) HSP 1 Score: 904.434 bits (2336), Expect = 0.000e+0 Identity = 505/508 (99.41%), Postives = 505/508 (99.41%), Query Frame = 1
Query: 49 MNAKRGKSSDSYSFHKYFIIKYSIVTAFMFTVGVGIVWNYTIYTLSLTPYTIIRIEYWKTILFISTILFLFNVGLILTNYRVNYMNRNFFLKGPTENPKIVYLICFPXXXXXXXXXXCTAAFLFHFNDCGSFIDIIFAGSIILFFTSMIFLIINVLSSSDTGELPLVNIINAFTLMVSLASVWNLTLYNIELVLTKSFKTTVKRVFNEATFFNQCSNKNIPNSPWPVDLDVNMLPLLRISSIILGICLMPYLFRPLKSHISFINKSIPNASHYFDVEFVSRKNYKNYYLSIVMIVLNFAIFIAKKFSPSNIIDTIALFLFFCXXXXXXXXXXXXXXDMQYIPTTGNGSASVTHYIFLWIGVIGEFVSVIERLILCIYNLYYGPNNSLILSVINLCNVGLLLINGFVQSVLLSIVIKDKSEYEVNKSGTNIYILPLVLCFYNGLYFIYNLFLVDPCYYHCNVFNIAFLTSGLYQICXXXXXXXXXXXXXXXXXNYLSMSNSHHRVVINS 1572
MNAKRGKSSDSYSFHKYFIIKYSIVTAFMFTVGVGIVWNYTIYTLSLTPYTIIRIEYWKTILFISTILFL NVGLILTNYRVNYMNRNFFLKGPTENPKIVYLICFPLIILILSSLS TAAFLFHFNDCGSFIDIIFAGSIILFFTSMIFLIINVLSSSDTGELPLVNIINAFTLMVSLASVWNLTLYNIELVLT SFKTTVKRVFNEATFFNQCSNKNIPNSPWPVDLDVNMLPLLRISSIILGICLMPYLFRPLKSHISFINKSIPNASHYFDVEFVSRKNYKNYYLSIVMIVLNFAIFIAKKFSPSNIIDTIALFLFFCVMLIVNLVSVVLLVDMQYIPTTGNGSASVTHYIFLWIGVIGEFVSVIERLILCIYNLYYGPNNSLILSVINLCNVGLLLINGFVQSVLLSIVIKDKSEYEVNKSGTNIYILPLVLCFYNGLYFIYNLFLVDPCYYHCNVFNIAFLTSGLYQICLPLTLLYRLFSSLLFTLNYLSMSNSHHRVVINS
Sbjct: 1 MNAKRGKSSDSYSFHKYFIIKYSIVTAFMFTVGVGIVWNYTIYTLSLTPYTIIRIEYWKTILFISTILFLLNVGLILTNYRVNYMNRNFFLKGPTENPKIVYLICFPLIILILSSLSYTAAFLFHFNDCGSFIDIIFAGSIILFFTSMIFLIINVLSSSDTGELPLVNIINAFTLMVSLASVWNLTLYNIELVLTNSFKTTVKRVFNEATFFNQCSNKNIPNSPWPVDLDVNMLPLLRISSIILGICLMPYLFRPLKSHISFINKSIPNASHYFDVEFVSRKNYKNYYLSIVMIVLNFAIFIAKKFSPSNIIDTIALFLFFCVMLIVNLVSVVLLVDMQYIPTTGNGSASVTHYIFLWIGVIGEFVSVIERLILCIYNLYYGPNNSLILSVINLCNVGLLLINGFVQSVLLSIVIKDKSEYEVNKSGTNIYILPLVLCFYNGLYFIYNLFLVDPCYYHCNVFNIAFLTSGLYQICLPLTLLYRLFSSLLFTLNYLSMSNSHHRVVINS 508
BLAST of SMED30003100 vs. Planmine SMEST
Match: SMESG000027091.1 (SMESG000027091.1) HSP 1 Score: 418.313 bits (1074), Expect = 2.124e-141 Identity = 232/474 (48.95%), Postives = 330/474 (69.62%), Query Frame = 1
Query: 49 MNAKRGKSSDSYSFHKYFIIKYSIVTAFMFTVGVGIVWNYTIYTLSLTPYTIIRIEYWKTILFISTILFLFNVGLILTNYRVNYMNRNFFLKGPTENPKIVYLICFPXXXXXXXXXXCTAAFLFHFNDCGSFIDIIFAGSIILFFTSMIFLIINVLSSSDTGELPLVNIINAFTLMVSLASVWNLTLYNIELVLTKSFKTTVKRVFNEATFFNQCSNKNIPNSPWPVDLDVNMLPLLRISSIILGICLMPYLFRPLKSHISFINKSIPNASHYFDVEFVSRKNYKNYYLSIVMIVLNFAIFIAKKFSPSNIIDTIALFLFFCXXXXXXXXXXXXXXDMQYIPTTGNGSASVTHYIFLWIGVIGEFVSVIERLILCIYNLYYGPNNSLILSVINLCNVGLLLINGFVQSVLLSIVIKDKSEYEVNKSGTNIYILPLVLCFYNGLYFIYNLFLVDPCYYHCNVFNIAFLTSGLYQI 1470
M + K DS S ++ I K +I++ F+F++ V I+ NY+IYTL +TPYT+ I YW++IL I+TILF+ NV L N R+NY+NRNFF KGPTENPKIVYLIC PLI++I SSLS T FLF + DCGS IDI+F+GSI++FF SM+F+IIN+LSSS+TGELPLVNI+NAFTL++SLAS+WNLT+YN +L+ FK TV+ VFN++ F N+C +N+ ++ W ++L+ +L L IS ++LGICL PY +P++SH SFINKSI + + E SR NY YY +++ L F ++ +K PS I L L C+++ +NLV++V++ D++Y+ T + T+YI L IG+IGEF ++I++LIL I ++Y N S++ S++ GL L+NGF+QS+LL ++IK SEYE +NIYIL L+LC YNG YFIY + ++ Y + FNI GL +I
Sbjct: 1 MLLRFSKYFDSISPYRLEIYKDAIISMFLFSISVAIIQNYSIYTLRVTPYTVKEIAYWQSILAITTILFIINVMLAFLNSRINYINRNFFQKGPTENPKIVYLICLPLIVIIFSSLSYTTLFLFLYVDCGSVIDIVFSGSIVIFFISMMFVIINILSSSNTGELPLVNIVNAFTLLISLASIWNLTVYNSIYMLSADFKRTVRIVFNDSAFKNECRIRNVTDNKWAINLNSILLSSLNISILMLGICLTPYFLKPIQSHFSFINKSIIKSISCIEEENPSRINYNRYYSVLILFALCFTFYVGQKLYPSTNFYEIELILRLCILVSINLVTIVVMRDLKYVSTVTKKESRETYYIILSIGIIGEFATIIQQLILKINTIFYSTNQSIVTSILLFGFFGLSLVNGFLQSMLLLVIIKVNSEYETIMKRSNIYILSLILCLYNGFYFIYEISSLNQYYENAIGFNIHLFEVGLLKI 474
BLAST of SMED30003100 vs. Planmine SMEST
Match: SMESG000027096.1 (SMESG000027096.1) HSP 1 Score: 406.757 bits (1044), Expect = 7.606e-137 Identity = 233/474 (49.16%), Postives = 330/474 (69.62%), Query Frame = 1
Query: 49 MNAKRGKSSDSYSFHKYFIIKYSIVTAFMFTVGVGIVWNYTIYTLSLTPYTIIRIEYWKTILFISTILFLFNVGLILTNYRVNYMNRNFFLKGPTENPKIVYLICFPXXXXXXXXXXCTAAFLFHFNDCGSFIDIIFAGSIILFFTSMIFLIINVLSSSDTGELPLVNIINAFTLMVSLASVWNLTLYNIELVLTKSFKTTVKRVFNEATFFNQCSNKNIPNSPWPVDLDVNMLPLLRISSIILGICLMPYLFRPLKSHISFINKSIPNASHYFDVEFVSRKNYKNYYLSIVMIVLNFAIFIAKKFSPSNIIDTIALFLFFCXXXXXXXXXXXXXXDMQYIPTTGNGSASVTHYIFLWIGVIGEFVSVIERLILCIYNLYYGPNNSLILSVINLCNVGLLLINGFVQSVLLSIVIKDKSEYEVNKSGTNIYILPLVLCFYNGLYFIYNLFLVDPCYYHCNVFNIAFLTSGLYQI 1470
M + K DS S ++ I K +I++ F+F++ V I+ NY+IYTL +TPYT+ I YW++IL I+TILF+ NV L N R+NY+NRNFF KGPTENPKIVYLIC PLII+I SSLS T FLF + DCGS IDI+F+GSI++FF SM+F+IIN+LSSS+TGELPLVNI+NAFTL++SLAS+WNLT+YN +L+ FK TV VFN++ F N+C +N+ ++ W ++L+ +L L IS ++LGICL PY +P++SH SFINKSI + + E SR NY YY +++ L F ++ +K PS I L L C+++ +NLV++V++ D++Y+ T + T+YI L IG+IGEF ++I++LIL I ++Y N S++ S++ GL L+NGF+QS+LL ++IK SEYE + +NIYIL L+LC YNG YFIY + ++ Y + FNI GL +I
Sbjct: 1 MLLRFSKYFDSISPYRLEIYKDAIISMFLFSISVAIIQNYSIYTLRVTPYTVKEIAYWQSILAITTILFIINVMLAFLNSRINYINRNFFQKGPTENPKIVYLICLPLIIIIFSSLSYTTLFLFLYVDCGSVIDIVFSGSIVIFFISMMFVIINILSSSNTGELPLVNIVNAFTLLISLASIWNLTVYNSIYMLSADFKITVSSVFNDSAFKNECRIRNVADNKWAINLNSILLSSLNISILMLGICLTPYFLKPIQSHFSFINKSILKSISCIEEENPSRINYNRYYSVLILFALCFTFYVGQKLYPSTNFYEIELILRLCILVSINLVTIVVMRDLKYVSTVTKKESRETYYIILSIGIIGEFATIIQQLILKINTIFYSTNQSIVTSILLFGFFGLSLVNGFLQSMLLLVIIKVNSEYETIMTRSNIYILSLILCLYNGFYFIYEISSLNQYYENAIGFNIHLFEVGLLKI 474
BLAST of SMED30003100 vs. Planmine SMEST
Match: SMESG000027312.1 (SMESG000027312.1) HSP 1 Score: 79.337 bits (194), Expect = 1.593e-15 Identity = 69/239 (28.87%), Postives = 120/239 (50.21%), Query Frame = 1
Query: 163 NYTIYTLSLTPYTIIRIEYWKTILFISTILFLFNVGLILTNYRVNYMNRNFFLKGPTENPKIVYLICFPXXXXXXXXXXCTAAFLFHFN----DCGSFIDIIFAGSIILFFTSMIFLIINVLSSSDTGELPLVNIINAFTLMVSLASVWNLTLYNIELVLTKSFKTTV--KRVFNEATFFNQCSNKNIPNSPWPVDLDVNMLPLLRISSIILGICLMPYLFRPLKSHISFINKSIPNAS 861
NY IY L + + W T ++I +++FLFN LIL + +NY RNF K ENP I+YL+C + +L C F+F N + + +FAG++++ FT++I L+IN S T E +N INAFT + S+ S+ NL YN+ T++F++T +++ T+ +C + LP+ + I C +P+LF + ++ + + + + +
Sbjct: 3 NYLIYALRVAGEKRLEGTIWNTFMYIGSVIFLFNFILILYSSHINYKYRNFIDKRIPENPLILYLLC----LPLLVLSLCGLIFIFIHNVMTLSVSKYTNALFAGNLVMLFTAIITLLINTSGSKSTYESWSLNYINAFTTLFSITSLTNLLCYNLVHKATRTFRSTFLNNTIYHNGTY--KCFYQ--------------FLPIFQTIIINTSFCFLPFLFVSINHYVKVLRQYLTDRN 221
BLAST of SMED30003100 vs. Planmine SMEST
Match: SMESG000025344.1 (SMESG000025344.1) HSP 1 Score: 73.9442 bits (180), Expect = 8.892e-14 Identity = 66/243 (27.16%), Postives = 119/243 (48.97%), Query Frame = 1
Query: 133 MFTVGVGIVWNYTIYTLSLTPYTIIRIEYWKTILFISTILFLFNVGLILTNYRVNYMNRNFFLKGPTENPKIVYLICFPXXXXXXXXXXCTAAFLFHFNDCGSFIDIIFAGSIILFFTSMIFLIINVLSSSDTGELPLVNIINAFTLMVSLASVWNLTLYNIELVLTKSFKTTVKRVFNEATFFNQCSNKNIPNSPWPVDLDVNMLPLLRISSIILGICLMPYLFRPLKSHISFINKSIPNAS 861
+F G+ V NY Y ++P + EY I + + + + ++ LI N ++N+ RN +K E P I YLIC P++ + L L F + F G+ +I++ +I + I L+I++ SDTGE +N N+ T+++++ SV NI ++LT F T+ N TF + SN N + + ++ L + + I L + +P+L PLK +++ + + P
Sbjct: 24 LFLFGMVYVTNYGFYVYQISPRGDRKDEYLDKINYSISFVKIVSIILICYNTQINHRFRNLRIKHKLEQPLIFYLICLPMLFISLMGLFV-IIFHYTFEKSGTSTNILYFALVIFEYFLFIILVIDINGFSDTGEEWFMNYFNSMTIIITMTSVMIQICLNIIMILTDDFTNTM----NRTTFVSLFSNHNF--TIFDKTCYRTLVFLKKRAVITLSLVFIPFLVIPLKRNLTHLFRFKPKED 259 The following BLAST results are available for this feature:
BLAST of SMED30003100 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30003100 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30003100 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30003100 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30003100 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30003100 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30003100 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30003100 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30003100 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30003100 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30003100 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30003100 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30003100 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30003100 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 >SMED30003100 ID=SMED30003100|Name=SMED30003100|organism=Schmidtea mediterranea sexual|type=transcript|length=1655bpback to top protein sequence of SMED30003100-orf-1 >SMED30003100-orf-1 ID=SMED30003100-orf-1|Name=SMED30003100-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=509bp MNAKRGKSSDSYSFHKYFIIKYSIVTAFMFTVGVGIVWNYTIYTLSLTPYback 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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