SMED30027990
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., 2020SMED30027990 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 1
Alignments
SMED30027990 aligns in the following genomic locations:
Homology
BLAST of SMED30027990 vs. Planmine SMEST
Match: SMESG000026858.1 (SMESG000026858.1) HSP 1 Score: 283.493 bits (724), Expect = 2.003e-89 Identity = 174/280 (62.14%), Postives = 195/280 (69.64%), Query Frame = 3 Query: 819 MNSDSRSELNNLPRILRLSPSVVALRQKXXXXXXRYRIL*TKYERVKGTWTSPETAKGLHQKIVRLSRARDELITESRSQ*VLIKEQGTTLPQILTDAELRASISGSVWARHLDIIPEEHLPMDTTNPTPSISDSRMTETPQVPVVE-----PLXXXXXXXXXXXXXXVEAD-LREAELSYTQYRIDDLPPPYKEFEIP---------------------------EESESPRIAQALDHLGLDLNEIAILTGNVLRISSPSEEAGSSTPIKVTYNINPP 1559 MN++SRS+LN LPRI LSPSVVALRQKLEELE +Y L KY+ KGTWTSPE AKGLHQKI+ LSRARDELITESRSQ VLI+EQ TTL Q+ TDA+LR I GSVW RHL+IIPE+HLPMDT NPT S S ++ E PQ+ VVE R R R R RR+EAD LRE E YRIDDLPPPY+EF+IP EESESPR+ QALDHLGLDL EIA+LTG+V R S PSEEAG ST I+VTYN NPP Sbjct: 1 MNTNSRSDLNYLPRIPLLSPSVVALRQKLEELEGKYEALKAKYDWAKGTWTSPEAAKGLHQKIIWLSRARDELITESRSQRVLIEEQSTTLRQLFTDAKLRTRIPGSVWGRHLNIIPEQHLPMDTINPTSSTSAPQIMEPPQILVVEPRPRVARRRPNRNRRRRKSRRIEADLLRETEPPSAPYRIDDLPPPYQEFKIPGLDPDVLYAPSVLFHSPARSIHINLVDEESESPRVNQALDHLGLDLGEIAVLTGSVPRTSPPSEEAGPSTRIEVTYNTNPP 280
BLAST of SMED30027990 vs. Planmine SMEST
Match: SMESG000030584.1 (SMESG000030584.1) HSP 1 Score: 254.988 bits (650), Expect = 4.010e-79 Identity = 164/287 (57.14%), Postives = 192/287 (66.90%), Query Frame = 3 Query: 837 SELNNLPRILRLSPSVVALRQKXXXXXXRYRIL*TKYERVKGTWTSPETAKGLHQKIVRLSRARDELITESRSQ*VLIKEQGTTLPQILTDAELRASISGSVWARHLDIIPEEHLPMDTTNPTPSISDSRMTETPQVPVVEPLXXXX-----XXXXXXXXXXVEAD-LREAELSYTQYRIDDLPPPYKEFEIPE---------------------------ESESPRIAQALDHLGLDLNEIAILTGNVLRISSPSEEAGSSTPIKVTYNINPPPYRPAKRRCLPTD 1598 ++LNNLPRI RLSPSVVALRQ LEELE++Y+ L TKYER+KGTWTSP AKGLHQKI+RLSRARDEL+TESRSQ VLIKEQ TL QI T+AELRA I GSVWARHL+IIPEEHLP++T PTPS S ++TE+PQVPVVEP A R R R RR+EAD LREAE S QYRIDDLPPPY+EFE+PE + E P QALD LGLD+ EIA+LT V + S E+G S + PP+ P+ + + D Sbjct: 2 TDLNNLPRIPRLSPSVVALRQWLEELEDKYKTLRTKYERMKGTWTSPVDAKGLHQKIIRLSRARDELVTESRSQWVLIKEQSRTLHQIFTNAELRARIPGSVWARHLNIIPEEHLPIETAIPTPSTSTPQVTESPQVPVVEPRTGAARRRPNRNRRRRESRRIEADLLREAEPSSAQYRIDDLPPPYQEFEMPEFDPDVLYAPIALFPSPSCSFHIDLVDDDYEVPVANQALDQLGLDIGEIAVLTSVVTKDPYRSNESGPSNRVD-------PPHPPSSQASVLAD 281
BLAST of SMED30027990 vs. Planmine SMEST
Match: SMESG000071407.1 (SMESG000071407.1) HSP 1 Score: 241.506 bits (615), Expect = 3.825e-75 Identity = 141/196 (71.94%), Postives = 159/196 (81.12%), Query Frame = 3 Query: 819 MNSDSRSELNNLPRILRLSPSVVALRQKXXXXXXRYRIL*TKYERVKGTWTSPETAKGLHQKIVRLSRARDELITESRSQ*VLIKEQGTTLPQILTDAELRASISGSVWARHLDIIPEEHLPMDTTNPTPSISDSRMTETPQVPVVEPLXXXXXXX--XXXXXXXVEAD-LREAELSYTQYRIDDLPPPYKEFEIP 1397 MN++SR++LNNLPRI RLSPSVVALRQKLEELE ++ L TKY+RVKGTWTSPE AKGLHQKI+RLSRARDELI ESRSQ VLIKEQ TTL QI TDAELRA I GSVWARHL+IIPE+HLPMDT NPTPS S ++ E PQ+ V EP AR A+ + R RRR+E D L+E E YRIDDLPPPY+EFEIP Sbjct: 1 MNTNSRTDLNNLPRIPRLSPSVVALRQKLEELEGKHETLKTKYDRVKGTWTSPEAAKGLHQKIIRLSRARDELIAESRSQRVLIKEQSTTLRQIFTDAELRARIPGSVWARHLNIIPEQHLPMDTINPTPSTSAPQIMEPPQILVAEPRARAAQPKSSSRRERRRIETDLLKETEPPSDPYRIDDLPPPYQEFEIP 196
BLAST of SMED30027990 vs. Planmine SMEST
Match: SMESG000028450.1 (SMESG000028450.1) HSP 1 Score: 248.054 bits (632), Expect = 1.413e-74 Identity = 163/273 (59.71%), Postives = 186/273 (68.13%), Query Frame = 3 Query: 846 NNLPRILRLSPSVVALRQKXXXXXXRYRIL*TKYERVKGTWTSPETAKGLHQKIVRLSRARDELITESRSQ*VLIKEQGTTLPQILTDAELRASISGSVWARHLDIIPEEHLPMDTTNPTPSISDSRMTETPQVPVVEPLXXXXXXXXXXXXXXVEADLREAE-LSYTQ-----YRIDDLPPPYK-EFEIP----------EESESPRIAQALDHLGLDLNEIAILTGNVLRISSPSEEAGSSTPIKVTYNINPPPYRPAKRRCLPTDIDADE 1613 NNLPRI RLSPS++A RQ+LE+LE+ + L KY++VKGTW SP+ AK L+QKI RLSRARDELI ESRSQ VLIKEQGTTL QI TDAELRA I GS+WAR+L+IIP +HLP+D P S+ S TE PQ PVVEP ARRRPNRN RR E RE LS T+ Y I DLPPPY F P +E+E P Q L LGLD +EIAILTGNV +E G ST + N+NPPPYRPAKRRC PTDIDADE Sbjct: 157 NNLPRIPRLSPSIIATRQRLEQLEKDHAALQDKYQKVKGTWLSPDAAKKLYQKISRLSRARDELIVESRSQRVLIKEQGTTLRQIFTDAELRARIPGSIWARNLNIIPAQHLPLDVPLPVHSVPASAGTEHPQTPVVEPRTGAARRRPNRNCRRHERRRRETHLLSSTEPISAPYSIHDLPPPYHVTFHSPARSIHINLVDDENEVPVANQTLGRLGLDPSEIAILTGNVPGCLPHPDEPGPSTCVDFNINVNPPPYRPAKRRCFPTDIDADE 429
BLAST of SMED30027990 vs. Planmine SMEST
Match: SMESG000010758.1 (SMESG000010758.1) HSP 1 Score: 234.572 bits (597), Expect = 6.126e-71 Identity = 149/284 (52.46%), Postives = 184/284 (64.79%), Query Frame = 3 Query: 858 RILRLSPSVVALRQKXXXXXXRYRIL*TKYERVKGTWTSPETAKGLHQKIVRLSRARDELITESRSQ*VLIKEQGTTLPQILTDAELRASISGSVWARHLDIIPEEHLPMDTTNPTPSISDSRMTETPQVPVVEPLXXXX-----XXXXXXXXXXVEAD-LREAELSYTQYRIDDLPPPYKEFEIP---------------------------EESESPRIAQALDHLGLDLNEIAILTGNVLRISSPSEEAGSSTPIKVTYNINPPPYRPAKRRCLPTDIDAD 1610 +I RLSPS++A+ QKLE+L+ + KY R+KGTWTSPE K ++QKI RLSRARDELITESRSQ VLIKEQ TTL Q TDAELRA + GS+WAR+L+IIPE+HLP+D P PS + E Q+PVVEP + A R R R RRR+EA+ LR E + YRIDDL PPY+EFE P +ESE+P + ALD LGL++ EIA L GN R +E G ST ++++ N+NP PYRPAKR+CLPTDIDAD Sbjct: 33 KIPRLSPSIIAICQKLEQLKRDHEAFRNKYHRLKGTWTSPEATKKMYQKITRLSRARDELITESRSQRVLIKEQSTTLRQKFTDAELRARVPGSIWARNLNIIPEKHLPLDVPRPAPSAPAPQSIEHSQIPVVEPHSGAARRRPNRNRRRRERRRMEANFLRTTEPASAPYRIDDLSPPYQEFEFPDLDPDVLYAPTVTFHSPPRSIHINLVDDESEAPALNNALDRLGLNVGEIAALMGNAPRSPPQIDEPGPSTRVELSINVNPHPYRPAKRQCLPTDIDAD 316 The following BLAST results are available for this feature:
BLAST of SMED30027990 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30027990 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30027990 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30027990 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30027990 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30027990 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30027990 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30027990 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30027990 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30027990 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30027990 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30027990 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30027990 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30027990 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 >SMED30027990 ID=SMED30027990|Name=SMED30027990|organism=Schmidtea mediterranea sexual|type=transcript|length=2191bpback to top protein sequence of SMED30027990-orf-1 >SMED30027990-orf-1 ID=SMED30027990-orf-1|Name=SMED30027990-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=144bp MDTTNPTPSISDSRMTETPQVPVVEPLARTARRRPNRNRRRVEADLREAEback to top Annotated Terms
The following terms have been associated with this transcript:
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