SMED30017630
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., 2020SMED30017630 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 1
Homology
BLAST of SMED30017630 vs. Planmine SMEST
Match: SMESG000061581.1 (SMESG000061581.1) HSP 1 Score: 629.402 bits (1622), Expect = 0.000e+0 Identity = 328/331 (99.09%), Postives = 331/331 (100.00%), Query Frame = 3 Query: 318 MNFNTYRFNTQIIVRFYREASNAKFTIDYSPKGAKNLHIQPLTDSIRIYQENIYLFRPPILKLVIQTEDGHKWGLSINIRSIITCTSQDGLPPKLIKISTVKPLNIVKKDIDNEDKVEIIFSPQLTDHLNSVTCASGLSSVTKQIKVFHRSESVEIIPSGLSHVLQNSSLQCKGYGEGYPASTVKWSVANLNKTSEKYFTISSSKMISVLTVNSIAPNNTQWQLKCSAMNIIPPLHHSGPFKLINITIGENIEASKLAAARIWTVSXXXXXXXXXXXXXXXXXXSKVKCKSRKRSGTPFESVHKSEHLHLKVNELAEKEEPYFTDKSDDVV 1310 M+FNTYRFNTQIIVRFYREA+NAKFTIDYSPKGAKNLHIQPLTDSIRIYQENIYLFRPPILKLVIQTEDGHKWGLSINIRSIITCTSQDGLPPKLIKISTVKPLNIVKKDIDNEDKVEIIFSPQLTDHLNSVTCASGLSSVTKQIKVFHRSESVEIIPSGLSHVLQNSSLQCKGYGEGYPASTVKWSVANLNKTSEKYFTISSSKMISVLTVNSIAPNNTQWQLKCSAMNIIPPLHHSGPFKLINITIGENIEASKLAAARIWTVSIVIIVLIVLFLFG+LCIGSKVKCKSRKRSGTPFESVHKSEHLHLKVNELAEKEEPYFTDKSDDVV Sbjct: 1 MHFNTYRFNTQIIVRFYREANNAKFTIDYSPKGAKNLHIQPLTDSIRIYQENIYLFRPPILKLVIQTEDGHKWGLSINIRSIITCTSQDGLPPKLIKISTVKPLNIVKKDIDNEDKVEIIFSPQLTDHLNSVTCASGLSSVTKQIKVFHRSESVEIIPSGLSHVLQNSSLQCKGYGEGYPASTVKWSVANLNKTSEKYFTISSSKMISVLTVNSIAPNNTQWQLKCSAMNIIPPLHHSGPFKLINITIGENIEASKLAAARIWTVSIVIIVLIVLFLFGILCIGSKVKCKSRKRSGTPFESVHKSEHLHLKVNELAEKEEPYFTDKSDDVV 331
BLAST of SMED30017630 vs. Planmine SMEST
Match: SMESG000010462.1 (SMESG000010462.1) HSP 1 Score: 117.472 bits (293), Expect = 1.095e-28 Identity = 75/278 (26.98%), Postives = 142/278 (51.08%), Query Frame = 3 Query: 246 QTHYIYPGYLPKLDRRLKETYFHIMNFNTYRFNTQIIVRFYREASNAKFTIDYSPKGAKNLHIQPLTDSIRIYQ-----ENIYLFRPPILKLVIQTEDGHKWGLSINIRSIITCTSQDGLPPKLIKISTVKPLNIVKKDIDNEDKVEIIFSPQLTDHLNSVTCASGLSSVTKQIKVFHRSESVEIIPSGLSHVLQNSSLQCKGYGEGYPASTVKWSVANLNKTSEKYFTISSSKMISVLTVNSIAPNNTQWQLKCSAMNIIPPLHHSGPFKLINITIG 1064 Q + PG++ L + K +F++ N+ +I+++F + ++ A+ I Y ++N+ + + + + ++ I L+ L+L+ +T D + G +N SI+TC + G P +KI V+ L+ +K ++++ ++F ++ DH+ + C +G ++ QIKVFH+ SV+I P +V SS+ C GYPA W + SE+YF + +L +N AP ++W +C+++N IP G +LI+ TIG Sbjct: 9 QEEILNPGFIKNLPKVYKGDFFNLKNYTVKSAVIEIVLQFNKPSNAAQLEIMYFESNSRNVRMNIVNNPHKFHRFILAKLTISLYLHWKLELLQKTLDHREDGFLVNQTSILTCLANGGFPFSPVKIIGVESLHKIKTLKIGKNEIHVVFISKIEDHMKKIGCLAGNDAIYDQIKVFHQPNSVKISPLVEGYVKNASSISCNP-NNGYPAPLTNWYWVSGPANSEQYFKTETDS--GILKMNKNAPIGSKWIFECASVNHIPNSIIKGKTELISFTIG 283
BLAST of SMED30017630 vs. Planmine SMEST
Match: SMESG000010460.1 (SMESG000010460.1) HSP 1 Score: 114.39 bits (285), Expect = 3.400e-27 Identity = 85/322 (26.40%), Postives = 158/322 (49.07%), Query Frame = 3 Query: 129 FPHNIDQDFVINIH--HPD-LEYHHFYATYILKVDNKLFNEIQTHYIYPGYLPKLDRRLKETYFHIMNFNTYRFNTQIIVRFYREASNAKFTIDYSPKGAKNLHIQPLTDSIRIYQE-----NIYLFRPPILKLVIQTEDGHKWGLSINIRSIITCTSQDGLPPKLIKISTVKPLN--IVKKDIDNEDKVEIIFSPQLTDHLNSVTCASGLSSVTKQIKVFHRSESVEIIPSGLSHVLQNSSLQCKGYGEGYPASTVKWSVANLNKTSEKYFTISSSKMISVLTVNSIAPNNTQWQLKCSAMNIIPPLHHSGPFKLINITIG 1064 FP +++FVI+ H H + L Y T I V K+ E H ++PG+ L +R+ YF++ N+ + +++V+F+ A+ A+F + + +++ + + + + Q NI L+ L+L+ +T D + GL+ N I+ C + G P ++ ++ L+ + +K + +++ F Q+ H+ + C +G +K+FH SV+ +P+ V +S+ C G G+P T +W + K SE YF IS + SVL +N AP ++W +C+ N IP + G +L+ IG Sbjct: 32 FPIYTEENFVIHFHAKHDNILPYTVIMFTTI--VQGKITEE---HVLHPGFQSSLPKRISGEYFNVKNYTINPYLIEVVVKFHEIANKAQFQMIFFESSSRDHRMNVMNNIDKFPQYKFGPLNISLWLHWKLELIQKTLDHREDGLTANSTGILICKASGGFPFSRVRFIGLESLSGTLTEKSDNIATEIQFTFHSQIQHHMKKIGCQAGKDVFHDTLKIFHHPTSVKFVPAVDGFVRNGTSVYCYP-GNGHPTPTARWVWVSGPKNSELYFLISKNG--SVLHMNKNAPLGSKWIFECNVTNTIPNSLNRGASELLAFIIG 345
BLAST of SMED30017630 vs. Planmine SMEST
Match: SMESG000066856.1 (SMESG000066856.1) HSP 1 Score: 105.531 bits (262), Expect = 4.021e-24 Identity = 82/344 (23.84%), Postives = 162/344 (47.09%), Query Frame = 3 Query: 105 FKITQSDKFPHNIDQDFVINIHHPDLEYHHFYATYIL-KVDNKLFNEIQ-THYIYPGYLPKLDRRLKETYFHIMNF--NTYRFNTQIIVRFYREASNAKFTIDYSPKGAKNLHIQPLTDSI---RIYQENIYLFRPPILKLVIQTEDGHKWGLSINIRSIITCTSQDGLPPKLIKISTVKPLNIVKKDIDNEDKVEIIFS-PQLTDHLNSVTCASGLSSVTKQIKVFHRSESVEIIPSGLSHVLQNSSLQCKGYGEGYPASTVKWSVANLNKTSEKYFTISSSKMISVLTVNSIAPNNTQWQLKCSAMNIIPPLHHSGPFKLINITIGENIEASKLAAARIWTV 1112 I ++DKFP +++ F H + Y+ ++L K+ +EI+ T +I PG L+ ++ Y ++N+ NTYR ++I++F+ A+ F I Y N + RI+ E I L IL I T DG G++ ++I+C S++G+PP + + L++ + D ++ + + +DH V C S + + IK+FH ++++ P+ + SS+ C +GYP T+ W + + ++++I++ +++L P +TQW C+A+N IP + G + T+ I+ +++ + + Sbjct: 24 LSIDRTDKFPIHVNSSF-----HILFKTVKTYSPFLLVKLQIVRRSEIEETAFINPGIENNLENKISNKYMSVINWHKNTYR-AIEMIIQFHPPANGLIFEILYFDSETANDRYNAFRNPSVMNRIFSEQIQLNIDAILDFYIATRDGRTDGVNSEEMAVISCESKNGVPPGRPILKYIDQLDVKNRKFHEADNRIVVHAFLRKSDHNKYVKCMSTGVTEYRYIKIFHHPTALQLRPNYAGTMPNGSSVLCTA-ADGYPPPTINWEFISGPPNASQFYSITAGNNLTIL---PHCPLHTQWTFNCTALNSIPKSYDLGTTRSFTFTVSPGIKVAEIVLGSLAAI 357
BLAST of SMED30017630 vs. Planmine SMEST
Match: SMESG000066856.1 (SMESG000066856.1) HSP 1 Score: 105.531 bits (262), Expect = 4.290e-24 Identity = 82/344 (23.84%), Postives = 162/344 (47.09%), Query Frame = 3 Query: 105 FKITQSDKFPHNIDQDFVINIHHPDLEYHHFYATYIL-KVDNKLFNEIQ-THYIYPGYLPKLDRRLKETYFHIMNF--NTYRFNTQIIVRFYREASNAKFTIDYSPKGAKNLHIQPLTDSI---RIYQENIYLFRPPILKLVIQTEDGHKWGLSINIRSIITCTSQDGLPPKLIKISTVKPLNIVKKDIDNEDKVEIIFS-PQLTDHLNSVTCASGLSSVTKQIKVFHRSESVEIIPSGLSHVLQNSSLQCKGYGEGYPASTVKWSVANLNKTSEKYFTISSSKMISVLTVNSIAPNNTQWQLKCSAMNIIPPLHHSGPFKLINITIGENIEASKLAAARIWTV 1112 I ++DKFP +++ F H + Y+ ++L K+ +EI+ T +I PG L+ ++ Y ++N+ NTYR ++I++F+ A+ F I Y N + RI+ E I L IL I T DG G++ ++I+C S++G+PP + + L++ + D ++ + + +DH V C S + + IK+FH ++++ P+ + SS+ C +GYP T+ W + + ++++I++ +++L P +TQW C+A+N IP + G + T+ I+ +++ + + Sbjct: 25 LSIDRTDKFPIHVNSSF-----HILFKTVKTYSPFLLVKLQIVRRSEIEETAFINPGIENNLENKISNKYMSVINWHKNTYR-AIEMIIQFHPPANGLIFEILYFDSETANDRYNAFRNPSVMNRIFSEQIQLNIDAILDFYIATRDGRTDGVNSEEMAVISCESKNGVPPGRPILKYIDQLDVKNRKFHEADNRIVVHAFLRKSDHNKYVKCMSTGVTEYRYIKIFHHPTALQLRPNYAGTMPNGSSVLCTA-ADGYPPPTINWEFISGPPNASQFYSITAGNNLTIL---PHCPLHTQWTFNCTALNSIPKSYDLGTTRSFTFTVSPGIKVAEIVLGSLAAI 358 The following BLAST results are available for this feature:
BLAST of SMED30017630 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30017630 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30017630 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30017630 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30017630 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30017630 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30017630 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30017630 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30017630 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30017630 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30017630 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30017630 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30017630 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30017630 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 >SMED30017630 ID=SMED30017630|Name=SMED30017630|organism=Schmidtea mediterranea sexual|type=transcript|length=1701bpback to top protein sequence of SMED30017630-orf-1 >SMED30017630-orf-1 ID=SMED30017630-orf-1|Name=SMED30017630-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=428bp MKCLLLLLLVYTGISFCKDSKFNYEFKITQSDKFPHNIDQDFVINIHHPDback to top InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
|