SMED30011060
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., 2020SMED30011060 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 7
Alignments
SMED30011060 aligns in the following genomic locations:
Homology
BLAST of SMED30011060 vs. TrEMBL
Match: A0A1Z4LXB0 (Uncharacterized protein OS=Calothrix parasitica NIES-267 OX=1973488 GN=NIES267_54020 PE=4 SV=1) HSP 1 Score: 113.235 bits (282), Expect = 3.210e-24 Identity = 76/231 (32.90%), Postives = 119/231 (51.52%), Query Frame = 2 Query: 254 LGIDVLSDGLTISFNEQGYKYENPEEDKNLISSQVTEDS-FNLNFKTVNDKEKFPLKIQINLNNCSDQQIVNFLGEIHFRNSKNEEISVPLTGRGTAALEGRINDAHASLCTSANSASFQERVAILSCILANFELTRDDIEIFRSHLLKVCKMYLGIEDLLSYTID--KAFGLTHLSYFDYMSNMFCDKPETDIPIMLSHFIEFGEPHPTYFYELTLHFSPEEIENELKKI 937 LG+ + + L I+F E G Y + D+ + + T+ + L + + PL+I+ L + VNF G ++F+ K E+ +P+TGRGTAALEGR NDAHA CT ASFQER A++ I A + + I++ L ++ + G D+LSY+I+ K SY DYM ++ P+ P +L I GEP+ YF + + EE+ + K + Sbjct: 43 LGVQFIGNNLIINFPETGNPYTEADGDRTKLGEKTTDTAALELTLQQL----VLPLEIKAYLLPFIENG-VNFAGNVNFKTPKGEKRKIPMTGRGTAALEGRANDAHAGFCTGGACASFQERSALVLAIAAAAGASHEQIDMIGEKLKQLNNRFHGRGDILSYSIECAKTPQDKMPSYLDYMIALY---PKDKRPALLESIINTGEPNDAYFEKALTKMTDEELAEDKKSV 265 HSP 2 Score: 66.6254 bits (161), Expect = 2.759e-8 Identity = 52/208 (25.00%), Postives = 95/208 (45.67%), Query Frame = 2 Query: 1151 LGVTVSDDTVKVSFYEKGNKYIYKNGXXXXXXXXXXXXFDLDLKMLTKDWXXXXXXXXXXXXXPMDNINFLGKIQITQSFFKRIIVPLVGRGTINVEGSINDKYMGFCMGTKSASFLQRVSLIYCSLVLLGVDKKDLQMFIAKIRSINSNYHGKHKIVDYIFKVVDEAEKD--SYFYFMLKTNMSYSTMPIVLKTILTYNRLPTQYYE 1768 LGV + + ++F E GN Y +G+ T + + L+L + + L++K L + +NF G + ++ +P+ GRGT +EG ND + GFC G ASF +R +L+ G + + M K++ +N+ +HG+ I+ Y + + SY +M+ P +L++I+ Y+E Sbjct: 43 LGVQFIGNNLIINFPETGNPYTEADGDRTKLGEKTTDTAALELTL--QQLVLPLEIKAYLLPFIENGVNFAGNVNFKTPKGEKRKIPMTGRGTAALEGRANDAHAGFCTGGACASFQERSALVLAIAAAAGASHEQIDMIGEKLKQLNNRFHGRGDILSYSIECAKTPQDKMPSYLDYMIAL-YPKDKRPALLESIINTGEPNDAYFE 247
BLAST of SMED30011060 vs. TrEMBL
Match: A0A0V7ZYP8 (Uncharacterized protein OS=Mastigocoleus testarum BC008 OX=371196 GN=BC008_35550 PE=4 SV=1) HSP 1 Score: 109.768 bits (273), Expect = 6.077e-23 Identity = 79/270 (29.26%), Postives = 134/270 (49.63%), Query Frame = 2 Query: 122 MKYPIKAKEGSPIMTIDNAAIPLHGIKGILDSSSTEEHILLCNKLGIDVLSDGLTISFNEQGYKYENPEEDKNLISSQVTEDSFNLNFKTVNDKEKFPLKIQIN---LNNCSDQQIVNFLGEIHFRNSKNEEISVPLTGRGTAALEGRINDAHASLCTSANSASFQERVAILSCILANFELTRDDIEIFRSHLLKVCKMYLGIEDLLSYTIDKAFGLTHL--SYFDYMSNMFCDKPETDIPIMLSHFIEFGEPHPTYFYELTLHFSPEEI 916 M + + A+EG+ T + + + + T+ L N +GI + D L ++F E G Y + + D+ + ++++ F + K+ P ++I L D VNF G ++F+ E+ +P+TGRGTAALEGR NDAHA CT ASFQER A++ + A + + I+I L ++ + G D+LSY I+ A + SY ++M+ ++ P+ P +L I G+P+ YF + + EE+ Sbjct: 1 MNFLVHAREGNSYTTTQGKVVTISETFTKISAPQTQREAL--NYIGIQFIGDRLILNFLETGNPYADAQGDRTKLGEKISDTVF----VELALKQNPPQALEIRAYLLPFIEDG--VNFAGNVNFKTPWGEKRKIPMTGRGTAALEGRANDAHAGFCTGGACASFQERSALVLAVAAAAGASDEQIDIIGEKLRQLNDKFHGRGDILSYCIECAKTAQNKIPSYKEFMTVLY---PKGRRPPLLESIINTGKPNDAYFAKALTKMTDEEL 259 HSP 2 Score: 69.3218 bits (168), Expect = 3.341e-9 Identity = 35/114 (30.70%), Postives = 57/114 (50.00%), Query Frame = 2 Query: 1346 DNINFLGKIQITQSFFKRIIVPLVGRGTINVEGSINDKYMGFCMGTKSASFLQRVSLIYCSLVLLGVDKKDLQMFIAKIRSINSNYHGKHKIVDYIFKVVDEAEKD--SYFYFM 1681 D +NF G + + ++ +P+ GRGT +EG ND + GFC G ASF +R +L+ G + + + K+R +N +HG+ I+ Y + A+ SY FM Sbjct: 107 DGVNFAGNVNFKTPWGEKRKIPMTGRGTAALEGRANDAHAGFCTGGACASFQERSALVLAVAAAAGASDEQIDIIGEKLRQLNDKFHGRGDILSYCIECAKTAQNKIPSYKEFM 220
BLAST of SMED30011060 vs. Planmine SMEST
Match: SMESG000018625.1 (SMESG000018625.1) HSP 1 Score: 1104.74 bits (2856), Expect = 0.000e+0 Identity = 590/593 (99.49%), Postives = 592/593 (99.83%), Query Frame = 2 Query: 122 MKYPIKAKEGSPIMTIDNAAIPLHGIKGILDSSSTEEHILLCNKLGIDVLSDGLTISFNEQGYKYENPEEDKNLISSQVTEDSFNLNFKTVNDKEKFPLKIQINLNNCSDQQIVNFLGEIHFRNSKNEEISVPLTGRGTAALEGRINDAHASLCTSANSASFQERVAILSCILANFELTRDDIEIFRSHLLKVCKMYLGIEDLLSYTIDKAFGLTHLSYFDYMSNMFCDKPETDIPIMLSHFIEFGEPHPTYFYELTLHFSPEEIENELKKISSHSLGPDGKPISSKVREIANKFILAEFLYLIKPYPVNIQTNNENEEIDLNKIAEEFNSGNIERILSILEKLGVTVSDDTVKVSFYEKGNKYIYKNGXXXXXXXXXXXXFDLDLKMLTKDWXXXXXXXXXXXXXPMDNINFLGKIQITQSFFKRIIVPLVGRGTINVEGSINDKYMGFCMGTKSASFLQRVSLIYCSLVLLGVDKKDLQMFIAKIRSINSNYHGKHKIVDYIFKVVDEAEKDSYFYFMLKTNMSYSTMPIVLKTILTYNRLPTQYYEDIXXXXXXXXXXXXXXXXXXSQILTIFSKAVSRVRSFVENLNIF 1900 MKYPIKAKEGSPIMTIDNAAIPLHGIKGILDSSSTEEHILLCNKLGIDVLSDGLTISF EQGYKYENPEEDKNLISSQVTEDSFNLNFKTVNDKEKFPLKIQINLNNCSDQQIVNFLGEIHFRNSKNEEISVPLTGRGTAALEGRINDAHASLCTSANSASFQERVAILSCILANFEL+RDDIEIFRSHLLKVCKMYLGIEDLLSYTIDKAFGLTHLSYFDYMSNMFCDKPETDIPIMLSHFIEFGEPHPTYFYELTLHFSPEEIENELKKISSHSLGPDGKPISSKVREIANKFILAEFLYLIKPYPVNIQTNNENEEIDLNKIAEEFNSGNIERILSILEKLGVTVSDDTVKVSFYEKGNKYIYKNGEITISDTISEEEFDLDLKMLTKDWDNLLKLKLILDINPMDNINFLGKIQITQSFFKRIIVPLVGRGTINVEGSINDKYMGFCMGTKSASFLQRV+LIYCSLVLLGVDKKDLQMFIAKIRSINSNYHGKHKIVDYIFKVVDEAEKDSYFYFMLKTNMSYSTMPIVLKTILTYNRLPTQYYEDIISKFSEEELILEEQRFEKSQILTIFSKAVSRVRSFVENLNIF Sbjct: 1 MKYPIKAKEGSPIMTIDNAAIPLHGIKGILDSSSTEEHILLCNKLGIDVLSDGLTISFKEQGYKYENPEEDKNLISSQVTEDSFNLNFKTVNDKEKFPLKIQINLNNCSDQQIVNFLGEIHFRNSKNEEISVPLTGRGTAALEGRINDAHASLCTSANSASFQERVAILSCILANFELSRDDIEIFRSHLLKVCKMYLGIEDLLSYTIDKAFGLTHLSYFDYMSNMFCDKPETDIPIMLSHFIEFGEPHPTYFYELTLHFSPEEIENELKKISSHSLGPDGKPISSKVREIANKFILAEFLYLIKPYPVNIQTNNENEEIDLNKIAEEFNSGNIERILSILEKLGVTVSDDTVKVSFYEKGNKYIYKNGEITISDTISEEEFDLDLKMLTKDWDNLLKLKLILDINPMDNINFLGKIQITQSFFKRIIVPLVGRGTINVEGSINDKYMGFCMGTKSASFLQRVALIYCSLVLLGVDKKDLQMFIAKIRSINSNYHGKHKIVDYIFKVVDEAEKDSYFYFMLKTNMSYSTMPIVLKTILTYNRLPTQYYEDIISKFSEEELILEEQRFEKSQILTIFSKAVSRVRSFVENLNIF 593 The following BLAST results are available for this feature:
BLAST of SMED30011060 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30011060 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30011060 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30011060 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30011060 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30011060 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30011060 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30011060 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 2
BLAST of SMED30011060 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30011060 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30011060 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30011060 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30011060 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30011060 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 >SMED30011060 ID=SMED30011060|Name=SMED30011060|organism=Schmidtea mediterranea sexual|type=transcript|length=1912bpback to top protein sequence of SMED30011060-orf-1 >SMED30011060-orf-1 ID=SMED30011060-orf-1|Name=SMED30011060-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=594bp MKYPIKAKEGSPIMTIDNAAIPLHGIKGILDSSSTEEHILLCNKLGIDVLback to top Annotated Terms
The following terms have been associated with this transcript:
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