SMED30031954
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., 2020SMED30031954 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 6
Alignments
SMED30031954 aligns in the following genomic locations:
Homology
BLAST of SMED30031954 vs. TrEMBL
Match: A0A1I8J4M9 (Uncharacterized protein OS=Macrostomum lignano OX=282301 GN=BOX15_Mlig019846g1 PE=4 SV=1) HSP 1 Score: 70.0922 bits (170), Expect = 8.210e-10 Identity = 55/207 (26.57%), Postives = 97/207 (46.86%), Query Frame = 2 Query: 206 WCRYEIERNFTQNLYNSVQNISSNLVTGTISIGLFNGIESLDYGGGYIVKIKYIDLISSVKDN--FYTFIEWIVVLIFLCLGIFSAFVNMLIFFIMVNRSPKHFLSKPILIYSWNIFGIINLIIASSV--GYDFISQKAVLVLLSYDEKNFGWLISKNIQPDNAFYLIIGGIVGFIVNLSFFTITSIDCSCIIRKRPVDNHSKADGI 814 W R + + ++ +N+SS+ ++G + +GLF G++SLD G G ++ ID+ + V + ++F W+ +L+F L A V+ + + R P LS P +Y WN G+I + A V FIS VL D ++ W +FYL++G + +V F + D C R+R ++ +G+ Sbjct: 37 WVDATPTRKVDKPIADAAKNLSSSKLSGYVHLGLFVGVQSLDNGLG--PRVVQIDVRAQVMADPPLFSFGLWVAMLVFGLLTAAWALVSAGFALLNIGRKPVRTLSGPAGLYLWNTCGLIACLAAIGVFLAAYFISLSKN-VLRQSDIDDYFWTSDGAAWLGMSFYLLVGCVPCVLVAHLFTWLAGGDLPC--RRRDALEKTRLEGM 238
BLAST of SMED30031954 vs. TrEMBL
Match: A0A1I8GQ10 (Uncharacterized protein OS=Macrostomum lignano OX=282301 PE=4 SV=1) HSP 1 Score: 70.0922 bits (170), Expect = 8.598e-10 Identity = 55/207 (26.57%), Postives = 97/207 (46.86%), Query Frame = 2 Query: 206 WCRYEIERNFTQNLYNSVQNISSNLVTGTISIGLFNGIESLDYGGGYIVKIKYIDLISSVKDN--FYTFIEWIVVLIFLCLGIFSAFVNMLIFFIMVNRSPKHFLSKPILIYSWNIFGIINLIIASSV--GYDFISQKAVLVLLSYDEKNFGWLISKNIQPDNAFYLIIGGIVGFIVNLSFFTITSIDCSCIIRKRPVDNHSKADGI 814 W R + + ++ +N+SS+ ++G + +GLF G++SLD G G ++ ID+ + V + ++F W+ +L+F L A V+ + + R P LS P +Y WN G+I + A V FIS VL D ++ W +FYL++G + +V F + D C R+R ++ +G+ Sbjct: 37 WVDATPTRKVDKPIADAAKNLSSSKLSGYVHLGLFVGVQSLDNGLG--PRVVQIDVRAQVMADPPLFSFGLWVAMLVFGLLTAAWALVSAGFALLNIGRKPVRTLSGPAGLYLWNTCGLIACLAAIGVFLAAYFISLSKN-VLRQSDIDDYFWTSDGAAWLGMSFYLLVGCVPCVLVAHLFTWLAGGDLPC--RRRDALEKTRLEGM 238
BLAST of SMED30031954 vs. TrEMBL
Match: A0A1S3GYG6 (clarin-3 isoform X3 OS=Lingula unguis OX=7574 GN=LOC106150439 PE=4 SV=1) HSP 1 Score: 66.2402 bits (160), Expect = 1.240e-8 Identity = 54/235 (22.98%), Postives = 104/235 (44.26%), Query Frame = 2 Query: 161 LCILFIISLSIGLPLWCRYEIERNFTQNLYNSVQNISSNLVTGTISIGLFNG---IESLDYGGGYIVKIKYIDLISSVKDN--FYTFIEWIVVLIFLCLGIFSAFVNMLIFFIMVNRSPKHFLSKPILIYSWNIFGIINLIIASSVGYDFISQKAVLVLLSYDEKN---------FGWLISKNIQPDNAFYLIIGGIVGFIVNLSFFTITSIDCSCIIRKRPVDNHSKADGIMMY 823 LC + + S+S+ W + R N + + + G++++GLF G ++ L+Y K + + ++D+ +F WI VL+F LGI + ++ I + +P ++ P+ +Y WN F + + FI+ +VL D KN GW + +F+LI+ + +++N+ F I+ C + + N + +DG+MMY Sbjct: 18 LCGIVLTSVSLATEHWVESKPTRAV-----NKTEELLTEDSQGSVNLGLFRGQKQVKVLNYNP------KPVWVFQKIQDDGILMSFNLWISVLVFAGLGIVWGLITIIFSCINLATTPIETITGPMGLYLWNAFACL---------FTFITVILFVVLFLTDLKNNVLEAKEIGIGWSSKDRTEVGYSFWLIVAATLCYLLNILFVIISGTQCKVFRKSKSHVNQNASDGMMMY 232
BLAST of SMED30031954 vs. TrEMBL
Match: A0A433SL20 (Uncharacterized protein OS=Elysia chlorotica OX=188477 GN=EGW08_022405 PE=4 SV=1) HSP 1 Score: 58.9214 bits (141), Expect = 4.129e-6 Identity = 53/202 (26.24%), Postives = 85/202 (42.08%), Query Frame = 2 Query: 206 WCRYEIERNFTQNLYNSVQNISSNLVTGTISIGLFNGIESLDYGGGYIVKIKYIDLISSVKDNFYTFIE---WIVVLIFLCLGIFSAFVNMLIFFIMVNRSPKHFLSKPILIYSWNIFGIINLIIASSVGYDFISQKAVLVLLSYDEKNFGWLISKNIQPDNAFYLIIGGIVGFIVNLSFFTITSIDCSCIIR---KRPVDN 793 W E N T NS SS T I+ GLF G S+DYG + I+ +LIS + ++++ ++ L+ L L I V + + P ++ P +Y WNI ++N + A V + +L D G+ D +FY ++G F+VN+ I+ CSC ++ VDN Sbjct: 32 WIISEPRGNETNQ--NSTGGSSSGY-TANITFGLFAGSRSIDYG----IGIRSQNLISHLSEHWFGLFSLPLYVATLVMLVLAIVWGLVAVGFAIFNLFGRPIETITGPSGLYLWNILALVNSLAAIGVYLGLYFSQFEENILQQDALGAGFTSDGLTDLDYSFYFLVGAGAAFLVNIGILLISDRKCSCSFSGSAEKEVDN 226
BLAST of SMED30031954 vs. TrEMBL
Match: A0A1I8F8F3 (Uncharacterized protein OS=Macrostomum lignano OX=282301 PE=4 SV=1) HSP 1 Score: 56.9954 bits (136), Expect = 9.466e-6 Identity = 52/185 (28.11%), Postives = 86/185 (46.49%), Query Frame = 2 Query: 275 NLVTGT-ISIGLFNGIESLDYGGGYIVKIKYIDLISSVKDN--FYTFIEWIVVLIFLCLGIFSAFVNMLIFFIMVNRSPKHFLSKPILIYSWNIFGIINLIIASSV--GYDFISQKAVLVLLSYDEKNFGWLISKNIQPDNAFYLIIGGIVGFIVNLSFFTITSIDCSCIIRKRPVDNHSKADGI 814 NL+ T + +GLF G++SLD G G ++ ID+ + V + ++F W+ +L+F L A V+ + + R P LS P +Y WN G+I + A V FIS VL D ++ W +FYL++G + +V F + D C R+R ++ +G+ Sbjct: 2 NLILPTQVHLGLFVGVQSLDNGLG--PRVVQIDVRAQVMADPPLFSFGLWVAMLVFGLLTAAWALVSAGFALLNIGRKPVRTLSGPAGLYLWNTCGLIACLAAIGVFLAAYFISLSKN-VLRQSDIDDYFWTSDGAAWLGMSFYLLVGCVPCVLVAHLFTWLAGGDLPC--RRRDALEKTRLEGM 181
BLAST of SMED30031954 vs. Planmine SMEST
Match: SMESG000029044.1 (SMESG000029044.1) HSP 1 Score: 471.47 bits (1212), Expect = 1.191e-167 Identity = 239/240 (99.58%), Postives = 239/240 (99.58%), Query Frame = 2 Query: 104 MIKNKRYRKAFLFIEILINLCILFIISLSIGLPLWCRYEIERNFTQNLYNSVQNISSNLVTGTISIGLFNGIESLDYGGGYIVKIKYIDLISSVKDNFYTFIEWIVVLIFLCLGIFSAFVNMLIFFIMVNRSPKHFLSKPILIYSWNIFGIINLIIASSVGYDFISQKAVLVLLSYDEKNFGWLISKNIQPDNAFYLIIGGIVGFIVNLSFFTITSIDCSCIIRKRPVDNHSKADGIMMY 823 MIKNKRYRKA LFIEILINLCILFIISLSIGLPLWCRYEIERNFTQNLYNSVQNISSNLVTGTISIGLFNGIESLDYGGGYIVKIKYIDLISSVKDNFYTFIEWIVVLIFLCLGIFSAFVNMLIFFIMVNRSPKHFLSKPILIYSWNIFGIINLIIASSVGYDFISQKAVLVLLSYDEKNFGWLISKNIQPDNAFYLIIGGIVGFIVNLSFFTITSIDCSCIIRKRPVDNHSKADGIMMY Sbjct: 1 MIKNKRYRKALLFIEILINLCILFIISLSIGLPLWCRYEIERNFTQNLYNSVQNISSNLVTGTISIGLFNGIESLDYGGGYIVKIKYIDLISSVKDNFYTFIEWIVVLIFLCLGIFSAFVNMLIFFIMVNRSPKHFLSKPILIYSWNIFGIINLIIASSVGYDFISQKAVLVLLSYDEKNFGWLISKNIQPDNAFYLIIGGIVGFIVNLSFFTITSIDCSCIIRKRPVDNHSKADGIMMY 240 The following BLAST results are available for this feature:
BLAST of SMED30031954 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30031954 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30031954 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30031954 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30031954 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30031954 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30031954 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30031954 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 5
BLAST of SMED30031954 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30031954 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30031954 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30031954 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30031954 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30031954 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 1
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30031954 ID=SMED30031954|Name=SMED30031954|organism=Schmidtea mediterranea sexual|type=transcript|length=1369bpback to top protein sequence of SMED30031954-orf-1 >SMED30031954-orf-1 ID=SMED30031954-orf-1|Name=SMED30031954-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=241bp MIKNKRYRKAFLFIEILINLCILFIISLSIGLPLWCRYEIERNFTQNLYNback 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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