SMED30017615
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., 2020SMED30017615 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 2
Alignments
SMED30017615 aligns in the following genomic locations:
Homology
BLAST of SMED30017615 vs. TrEMBL
Match: R7TCX3 (ANK_REP_REGION domain-containing protein OS=Capitella teleta OX=283909 GN=CAPTEDRAFT_207206 PE=4 SV=1) HSP 1 Score: 77.0258 bits (188), Expect = 6.808e-12 Identity = 45/150 (30.00%), Postives = 80/150 (53.33%), Query Frame = 3 Query: 222 EDGYTLLQKCVFHGSKSNDFKLFYYLTQQDANPFISDQNFKRDTIAWVTFWKLERQLRFLLKTFNGFINYYTDDRDGNTYLHLAVETGNIRIVRMIAERMFQLNLNMNKSNKIGFSPNLLAYYLGFLDITKMFEYEFQVPKSRFDEFNHR 671 DG TLL + + +K ++F YL ++ ANP +D RD +AW +++ LL G ++ D G T LH AV++ + IV +IAE M +L +++++ + G +P LLA LG ++I+++ +F + + D+ R Sbjct: 24 SDGETLLLQALRIDNKKKRKRMFEYLMRRGANPLDTDAKTDRDALAWACSLGRTAEVKSLLVATQGEFDFKRADNQGMTPLHHAVQSMDPDIVTVIAEEMRRLWISLDQIDHRGLTPYLLALKLGLVNISEIL-LDFGASREQADKRTFR 172
BLAST of SMED30017615 vs. TrEMBL
Match: A0A210QIQ5 (Ankyrin repeat protein OS=Mizuhopecten yessoensis OX=6573 GN=KP79_PYT05888 PE=4 SV=1) HSP 1 Score: 77.0258 bits (188), Expect = 1.125e-11 Identity = 40/157 (25.48%), Postives = 74/157 (47.13%), Query Frame = 3 Query: 204 DFNIHQEDGYTLLQKCVFHGSKSNDFKLFYYLTQQDANPFISDQNFKRDTIAWVTFWKLERQLRFLLKTFNGFINYYTDDRDGNTYLHLAVETGNIRIVRMIAERMFQLNLNMNKSNKIGFSPNLLAYYLGFLDITKMFEYEFQVPKSRFDEFNHRT 674 D N+ GY++L + K+F L ++A+P D R + W +++FL+ F G + + D++G T LH A + G +V M+A + L ++ + +G +P L A LG+ +IT++ + + + + D F RT Sbjct: 84 DVNMRNSYGYSVLVAALHIDDNDQREKMFRTLINRNADPLQKDPKHGRHVLCWACLLGCVNEVKFLMDMFKGDFDLHEKDKEGMTVLHHATQAGQEEVVTMLASEFRRFGLTVDIVDNLGLTPYLHARRLGYTNITRILQDQGRACPGQGDMFTFRT 240
BLAST of SMED30017615 vs. TrEMBL
Match: K1PX93 (Putative ZDHHC-type palmitoyltransferase 6 OS=Crassostrea gigas OX=29159 GN=CGI_10013542 PE=4 SV=1) HSP 1 Score: 74.3294 bits (181), Expect = 7.159e-11 Identity = 40/149 (26.85%), Postives = 71/149 (47.65%), Query Frame = 3 Query: 228 GYTLLQKCVFHGSKSNDFKLFYYLTQQDANPFISDQNFKRDTIAWVTFWKLERQLRFLLKTFNGFINYYTDDRDGNTYLHLAVETGNIRIVRMIAERMFQLNLNMNKSNKIGFSPNLLAYYLGFLDITKMFEYEFQVPKSRFDEFNHRT 674 GY++L + K+F YL ++A+P D R ++W Q+ LL NG + D +G T LH A + G++ IVR + E + L+++ + +G +P L A LG+ +IT++ E + + D + R+ Sbjct: 34 GYSVLVGALHIDCDEKRGKMFRYLLSRNADPKDKDSKHNRSVLSWAAILGRAEQVDMLLNILNGDHDLTDKDTEGMTVLHHATQGGHVGIVRRLVEEFRRFRLSVDVHDNLGLTPYLHAKRLGYKEITEILHKEGRACPGQSDSYTFRS 182
BLAST of SMED30017615 vs. TrEMBL
Match: A0A1I8H3U2 (ANK_REP_REGION domain-containing protein OS=Macrostomum lignano OX=282301 GN=BOX15_Mlig014263g2 PE=4 SV=1) HSP 1 Score: 69.707 bits (169), Expect = 2.384e-9 Identity = 39/155 (25.16%), Postives = 76/155 (49.03%), Query Frame = 3 Query: 210 NIHQEDGYTLLQKCVFHGSKSNDFKLFYYLTQQDANPFISDQNFKRDTIAWVTFWKLERQLRFLLKTFNGFINYYTDDRDGNTYLHLAVETGNIRIVRMIAERMFQLNLNMNKSNKIGFSPNLLAYYLGFLDITKMFEYEFQVPKSRFDEFNHRT 674 ++ DG T L + G++ ++F YL A D ++RD + W T +LR +L+ +N D G TY+HLAV +G++ V +I + +L+++++ + G +P LL+ LG+ I++ + + + D + R+ Sbjct: 129 SVDPADGKTPLMAALHIGAEKRRQEVFNYLAHHGAVYDGVDDQYRRDLVGWATALGRHEELRDILRDTTEEVNLQYRDALGLTYMHLAVMSGSLPTVEIIIDEFRRLDVSVDMPDAEGITPYLLSRKLGYTRISQCLQQRGRASAHKSDPVSLRS 283
BLAST of SMED30017615 vs. TrEMBL
Match: A0A267H7D6 (ANK_REP_REGION domain-containing protein OS=Macrostomum lignano OX=282301 GN=BOX15_Mlig014263g1 PE=4 SV=1) HSP 1 Score: 69.707 bits (169), Expect = 2.427e-9 Identity = 39/155 (25.16%), Postives = 76/155 (49.03%), Query Frame = 3 Query: 210 NIHQEDGYTLLQKCVFHGSKSNDFKLFYYLTQQDANPFISDQNFKRDTIAWVTFWKLERQLRFLLKTFNGFINYYTDDRDGNTYLHLAVETGNIRIVRMIAERMFQLNLNMNKSNKIGFSPNLLAYYLGFLDITKMFEYEFQVPKSRFDEFNHRT 674 ++ DG T L + G++ ++F YL A D ++RD + W T +LR +L+ +N D G TY+HLAV +G++ V +I + +L+++++ + G +P LL+ LG+ I++ + + + D + R+ Sbjct: 129 SVDPADGKTPLMAALHIGAEKRRQEVFNYLAHHGAVYDGVDDQYRRDLVGWATALGRHEELRDILRDTTEEVNLQYRDALGLTYMHLAVMSGSLPTVEIIIDEFRRLDVSVDMPDAEGITPYLLSRKLGYTRISQCLQQRGRASAHKSDPVSLRS 283
BLAST of SMED30017615 vs. Planmine SMEST
Match: SMESG000016882.1 (SMESG000016882.1) HSP 1 Score: 660.988 bits (1704), Expect = 0.000e+0 Identity = 335/337 (99.41%), Postives = 336/337 (99.70%), Query Frame = 3 Query: 96 MSSLKTNSKWTREKVLDIIEKQNLFELKILQQHKEIDFNIHQEDGYTLLQKCVFHGSKSNDFKLFYYLTQQDANPFISDQNFKRDTIAWVTFWKLERQLRFLLKTFNGFINYYTDDRDGNTYLHLAVETGNIRIVRMIAERMFQLNLNMNKSNKIGFSPNLLAYYLGFLDITKMFEYEFQVPKSRFDEFNHRTXXXXXXXXXXXXXXDRIQWIKERKNFNKICGLDMSEIKLPAIEEKVRDTDKIEVKSHELDSTRDWCYVMKKQESAKEFPTNAINFKAFLPKYMKIYSKQNLPCFIRDKVYDKRSVEIYQIMQQKLFGDKMKRKPNRMSNKKIMF 1106 MSSLKTNSKWTREKVLDIIEKQNLFELKILQQHKEIDFN HQEDGYTLLQKCVFHGSKSNDFKLFYYLTQQDANPFISDQNFKRDTIAWVTFWKLERQLRFLLKTFNGFINYYTDDRDGNTYLHLAVETGNIRIVRMIAERMFQLNLNMNKSNKIGFSPNLLAYYLGFLDITKMFEYEFQVPKSRFDEFNHRTKTLILQQGLKKKKQDRIQWIKERKNFNKICGLDMSEIKLPAIEEKVRDTDKIEVKSHELDSTRDWCYVMKKQES+KEFPTNAINFKAFLPKYMKIYSKQNLPCFIRDKVYDKRSVEIYQIMQQKLFGDKMKRKPNRMSNKKIMF Sbjct: 1 MSSLKTNSKWTREKVLDIIEKQNLFELKILQQHKEIDFNFHQEDGYTLLQKCVFHGSKSNDFKLFYYLTQQDANPFISDQNFKRDTIAWVTFWKLERQLRFLLKTFNGFINYYTDDRDGNTYLHLAVETGNIRIVRMIAERMFQLNLNMNKSNKIGFSPNLLAYYLGFLDITKMFEYEFQVPKSRFDEFNHRTKTLILQQGLKKKKQDRIQWIKERKNFNKICGLDMSEIKLPAIEEKVRDTDKIEVKSHELDSTRDWCYVMKKQESSKEFPTNAINFKAFLPKYMKIYSKQNLPCFIRDKVYDKRSVEIYQIMQQKLFGDKMKRKPNRMSNKKIMF 337
BLAST of SMED30017615 vs. Planmine SMEST
Match: SMESG000046272.1 (SMESG000046272.1) HSP 1 Score: 64.6994 bits (156), Expect = 2.344e-11 Identity = 31/100 (31.00%), Postives = 56/100 (56.00%), Query Frame = 3 Query: 324 ISDQNFKRDTIAWVTFWKLERQLRFLLKTFNGFINYYTDDRDGNTYLHLAVETGNIRIVRMIAERMFQLNLNMNKSNKIGFSPNLLAYYLGFLDITKMFE 623 I D F+RD + W + + ++ N ++Y D DGNTYLHLAV + + +V++I M ++ + SN +GF+P +L+ LG +I+++ + Sbjct: 134 IQDLIFQRDPLHWCCILSIVMEFEMIVDYLNADVDYTKKDIDGNTYLHLAVMSNSWELVKIILNAMTINGISGDISNSLGFTPYILSRKLGHREISELIQ 233
BLAST of SMED30017615 vs. Planmine SMEST
Match: SMESG000046261.1 (SMESG000046261.1) HSP 1 Score: 64.6994 bits (156), Expect = 2.344e-11 Identity = 31/100 (31.00%), Postives = 56/100 (56.00%), Query Frame = 3 Query: 324 ISDQNFKRDTIAWVTFWKLERQLRFLLKTFNGFINYYTDDRDGNTYLHLAVETGNIRIVRMIAERMFQLNLNMNKSNKIGFSPNLLAYYLGFLDITKMFE 623 I D F+RD + W + + ++ N ++Y D DGNTYLHLAV + + +V++I M ++ + SN +GF+P +L+ LG +I+++ + Sbjct: 134 IQDLIFQRDPLHWCCILSIVMEFEMIVDYLNADVDYTKKDIDGNTYLHLAVMSNSWELVKIILNAMTINGISGDISNSLGFTPYILSRKLGHREISELIQ 233 The following BLAST results are available for this feature:
BLAST of SMED30017615 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30017615 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30017615 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30017615 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30017615 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30017615 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30017615 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30017615 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 5
BLAST of SMED30017615 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30017615 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30017615 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30017615 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30017615 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30017615 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 3
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30017615 ID=SMED30017615|Name=SMED30017615|organism=Schmidtea mediterranea sexual|type=transcript|length=1123bpback to top protein sequence of SMED30017615-orf-1 >SMED30017615-orf-1 ID=SMED30017615-orf-1|Name=SMED30017615-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=338bp MSSLKTNSKWTREKVLDIIEKQNLFELKILQQHKEIDFNIHQEDGYTLLQback 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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