SMED30007588
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., 2020SMED30007588 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 9
Alignments
SMED30007588 aligns in the following genomic locations:
Homology
BLAST of SMED30007588 vs. Ensembl Zebrafish
Match: spice1 (spindle and centriole associated protein 1 [Source:ZFIN;Acc:ZDB-GENE-041212-64]) HSP 1 Score: 58.151 bits (139), Expect = 1.716e-8 Identity = 39/120 (32.50%), Postives = 66/120 (55.00%), Query Frame = 3 Query: 171 WNDTVSDLNAYKLTPEECLQRKIDHISKNQQIHFHTSQDTPKNGETVYDRLTKVRYGNQ-IKDSEVNQ-RRKIIKGMFTTDRELFDLFEQSEKSLSAVESMFGDPLKRYKVNPSVTPAPN 524 W TV+DL+ +K TPEE +R H S+N+ + E LT+ R NQ + +++ RR II+ +F+ +L D+ +S+++L+ V+ +FGD +R PS+T AP+ Sbjct: 30 WVSTVNDLSVHKATPEELARRHEMHRSQNRVV---------AQWELKEKTLTRRRRKNQPLSPPGLDRARRDIIREVFSDHCQLQDVIARSDRALAVVKDLFGDAPRRRTGFPSITVAPD 140
BLAST of SMED30007588 vs. Ensembl Xenopus
Match: elmod2 (ELMO/CED-12 domain containing 2 [Source:Xenbase;Acc:XB-GENE-998865]) HSP 1 Score: 51.6026 bits (122), Expect = 2.494e-6 Identity = 37/123 (30.08%), Postives = 61/123 (49.59%), Query Frame = 3 Query: 171 WNDTVSDLNAYKLTPEECLQRKIDHISKNQQIHFHTSQDTPKNGET-----VYDRLTKVRYGNQIKDSEVNQRRKIIKGMFTTDRELFDLFEQSEKSLSAVESMFGDPLKRYKVNPSVTPAPN 524 W+ TVSDL + T EE R+ H SKNQ + Q+ N ++ Y L + N R ++K + + + D+ E+S+++L+ V+ +FGD +R+ PSVT AP+ Sbjct: 56 WDSTVSDLTVLRATNEELEHRREIHRSKNQWLARWELQNKATNKKSEKENGGYSALLE------------NSRLALMKEILSDQYLMNDVLERSDRALAVVKDLFGDAPRRHTGFPSVTMAPS 166
BLAST of SMED30007588 vs. Ensembl Xenopus
Match: elmod2 (ELMO/CED-12 domain containing 2 [Source:Xenbase;Acc:XB-GENE-998865]) HSP 1 Score: 51.2174 bits (121), Expect = 3.217e-6 Identity = 37/123 (30.08%), Postives = 61/123 (49.59%), Query Frame = 3 Query: 171 WNDTVSDLNAYKLTPEECLQRKIDHISKNQQIHFHTSQDTPKNGET-----VYDRLTKVRYGNQIKDSEVNQRRKIIKGMFTTDRELFDLFEQSEKSLSAVESMFGDPLKRYKVNPSVTPAPN 524 W+ TVSDL + T EE R+ H SKNQ + Q+ N ++ Y L + N R ++K + + + D+ E+S+++L+ V+ +FGD +R+ PSVT AP+ Sbjct: 32 WDSTVSDLTVLRATNEELEHRREIHRSKNQWLARWELQNKATNKKSEKENGGYSALLE------------NSRLALMKEILSDQYLMNDVLERSDRALAVVKDLFGDAPRRHTGFPSVTMAPS 142
BLAST of SMED30007588 vs. UniProt/SwissProt
Match: sp|Q6DF94|SPICE_XENLA (Spindle and centriole-associated protein 1 OS=Xenopus laevis OX=8355 GN=spice1 PE=2 SV=1) HSP 1 Score: 53.5286 bits (127), Expect = 3.650e-6 Identity = 36/136 (26.47%), Postives = 69/136 (50.74%), Query Frame = 3 Query: 126 KSSYKSVRKIKDKPAWNDTVSDLNAYKLTPEECLQRKIDHISKNQQIHFHTSQDTPKNGETVYDRLTKVRYGNQIKDSEV---NQRRKIIKGMFTTDRELFDLFEQSEKSLSAVESMFGDPLKRYKVNPSVTPAPN 524 K K+ +K++ + W+ +V+DL ++ T EE R+ H SKNQ + ++ K Y K++ N R ++K + + + D+ E+S+++L+ V+ +FGD +R+ P+VT AP+ Sbjct: 17 KKPSKTRKKLQARKEWDSSVNDLTVFRATNEELEHRREIHRSKNQWL-------------ARWELQNKANYKQSEKENSTQFENSRLALMKEILSDQYLMNDVLERSDRALAVVKDLFGDAPRRHTGFPNVTMAPS 139
BLAST of SMED30007588 vs. TrEMBL
Match: V9KEX3 (Spindle and centriole-associated protein 1 OS=Callorhinchus milii OX=7868 PE=2 SV=1) HSP 1 Score: 65.0846 bits (157), Expect = 2.483e-7 Identity = 40/125 (32.00%), Postives = 68/125 (54.40%), Query Frame = 3 Query: 147 RKIKDKPAWNDTVSDLNAYKLTPEECLQRKIDHISKNQQIHFHTSQDTPKNGETVYDRLTKVRYGNQIKDSEVNQRRKIIKGMFTTDRELFDLFEQSEKSLSAVESMFGDPLKRYKVNPSVTPAP 521 RK DK W+ TVSDL+ ++ TPEE +R H+SKN+ + + K R ++G ++ DS Q+ I++ + +L D+ E+S+++++ V +FGD +R P+VT AP Sbjct: 25 RKTLDK-EWDSTVSDLSVHRATPEELAKRHEKHLSKNRAL---AQWELGKRAIASKQR----KHGQKMADSLDRQKYAIMREILFDQYQLQDVLERSDQAMAVVRDLFGDAPRRQAGFPNVTMAP 141
BLAST of SMED30007588 vs. TrEMBL
Match: A0A4W3IGP2 (Uncharacterized protein OS=Callorhinchus milii OX=7868 PE=4 SV=1) HSP 1 Score: 64.6994 bits (156), Expect = 3.457e-7 Identity = 40/125 (32.00%), Postives = 68/125 (54.40%), Query Frame = 3 Query: 147 RKIKDKPAWNDTVSDLNAYKLTPEECLQRKIDHISKNQQIHFHTSQDTPKNGETVYDRLTKVRYGNQIKDSEVNQRRKIIKGMFTTDRELFDLFEQSEKSLSAVESMFGDPLKRYKVNPSVTPAP 521 RK DK W+ TVSDL+ ++ TPEE +R H+SKN+ + + K R ++G ++ DS Q+ I++ + +L D+ E+S+++++ V +FGD +R P+VT AP Sbjct: 25 RKTLDK-EWDSTVSDLSVHRATPEELAKRHEKHLSKNRAL---AQWELGKRAIASKQR----KHGQKMADSLDRQKYAIMREILFDQYQLQDVLERSDQAMAVVRDLFGDAPRRQAGFPNVTMAP 141
BLAST of SMED30007588 vs. TrEMBL
Match: A0A151MD58 (Spindle and centriole-associated protein 1 isoform A OS=Alligator mississippiensis OX=8496 GN=SPICE1 PE=4 SV=1) HSP 1 Score: 63.929 bits (154), Expect = 6.259e-7 Identity = 37/119 (31.09%), Postives = 67/119 (56.30%), Query Frame = 3 Query: 171 WNDTVSDLNAYKLTPEECLQRKIDHISKNQ-QIHFHTSQDTPKNGETVYDRLTKVRYGNQIKDSEVNQRRKIIKGMFTTDRELFDLFEQSEKSLSAVESMFGDPLKRYKVNPSVTPAPN 524 W+ TV DL ++ TPE+ L+R H SKN+ +H + PK ++ K R G DS ++ +++ + + +L D+ EQS+++++ V+ +FGD +R+ P+VT AP+ Sbjct: 30 WDSTVHDLTVHQATPEDILRRHEIHKSKNKVLVHLELQEKAPKR------KIKKQRQG--APDSLEKRKLALMREILSDQYQLQDVLEQSDQAMAVVKDLFGDAPRRHTGFPNVTMAPD 140
BLAST of SMED30007588 vs. TrEMBL
Match: A0A151MD65 (Spindle and centriole-associated protein 1 isoform B OS=Alligator mississippiensis OX=8496 GN=SPICE1 PE=4 SV=1) HSP 1 Score: 63.5438 bits (153), Expect = 6.655e-7 Identity = 37/119 (31.09%), Postives = 67/119 (56.30%), Query Frame = 3 Query: 171 WNDTVSDLNAYKLTPEECLQRKIDHISKNQ-QIHFHTSQDTPKNGETVYDRLTKVRYGNQIKDSEVNQRRKIIKGMFTTDRELFDLFEQSEKSLSAVESMFGDPLKRYKVNPSVTPAPN 524 W+ TV DL ++ TPE+ L+R H SKN+ +H + PK ++ K R G DS ++ +++ + + +L D+ EQS+++++ V+ +FGD +R+ P+VT AP+ Sbjct: 30 WDSTVHDLTVHQATPEDILRRHEIHKSKNKVLVHLELQEKAPKR------KIKKQRQG--APDSLEKRKLALMREILSDQYQLQDVLEQSDQAMAVVKDLFGDAPRRHTGFPNVTMAPD 140
BLAST of SMED30007588 vs. TrEMBL
Match: A0A3S0ZSA3 (Uncharacterized protein OS=Elysia chlorotica OX=188477 GN=EGW08_006625 PE=4 SV=1) HSP 1 Score: 63.1586 bits (152), Expect = 8.838e-7 Identity = 40/123 (32.52%), Postives = 64/123 (52.03%), Query Frame = 3 Query: 153 IKDKPAWNDTVSDLNAYKLTPEECLQRKIDHISKNQQIHFHTSQDTPKNGETVYDRLTKVRYGNQIKDSEVNQRRKIIKGMFTTDRELFDLFEQSEKSLSAVESMFGDPLKRYKVNPSVTPAP 521 + +P W+D+V+DL ++ TPEE RK H SKN H S ++L K R N++ +E Q+ I+K + EL + +S+ ++ V+ +FGD KR+ P+VT AP Sbjct: 16 VPKRPGWDDSVNDLTVFRATPEEVFLRKEAHKSKN-----HIS--------VKLEKLRKERQRNKLSGAEA-QQLAIMKEVLYDQHELQKVLAKSDTMMAVVKDLFGDDPKRFMGFPNVTSAP 124
BLAST of SMED30007588 vs. Ensembl Nematostella
Match: EDO48168 (Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7RJY6]) HSP 1 Score: 52.373 bits (124), Expect = 3.102e-7 Identity = 40/130 (30.77%), Postives = 60/130 (46.15%), Query Frame = 3 Query: 165 PAWNDTVSDLNAYKLTPEECLQRKIDHISKNQQIHFHTSQDTPKNGETVYDRLTKVRYGNQIKDSEVNQRRKIIKGMFTTDRELF-DLFEQSEKSLSAVESMFGDPLKRYKVNPSVTPAPNFTTVNVKEN 551 P W+ TV+DLN YK + +E QR H SKN Q T K Y I QR++ I R+ F D+ +S++++S V+ +FGD K+Y P++T P + N + N Sbjct: 41 PEWDSTVNDLNVYKASEDEVRQRHEAHKSKN--YGLPRKQATNKENSPGY-----------ITTPNSAQRKQAILQEILYGRDQFQDVLAESDRTMSVVKDLFGDDPKKYMGFPNITVPPQVLSENTERN 157
BLAST of SMED30007588 vs. Planmine SMEST
Match: SMESG000034112.1 (SMESG000034112.1) HSP 1 Score: 662.144 bits (1707), Expect = 0.000e+0 Identity = 348/350 (99.43%), Postives = 349/350 (99.71%), Query Frame = 3 Query: 111 MNDTKKSSYKSVRKIKDKPAWNDTVSDLNAYKLTPEECLQRKIDHISKNQQIHFHTSQDTPKNGETVYDRLTKVRYGNQIKDSEVNQRRKIIKGMFTTDRELFDLFEQSEKSLSAVESMFGDPLKRYKVNPSVTPAPNFTTVNVKENTNNSNAGALNXXXXXXXXXXXXXXXXXXXXXNNDDLSRFRNFIENERKAEEVLENRKIKVVNERNSVKMQDSSTETAEIGESNNVLQYVCSRLLDSPCPDHLISNCNKDYSDKIINYIINVNRKQAIQIEQLNSDILRNKELIDALTLELINNNEKVKVMKNGYETFTKKVTTEISEMKSLIIKYLDQKIPSDSKPIPNYIYN 1160 MNDTKKSSYKSVRKIKDKPAWNDTVSDLNAYKLTPEECLQRKIDHISKNQQIHFHTSQDTPKN ETVYDRLTKVRYGNQIKDSEVNQRRKIIKGMFTTDRELFDLFEQSEKSLSAVESMFGDPLKRYKVNPSVTPAPNFTTVNVKENTNNSNAGALNEFSDSELESSKSELKSTSNHSNNDDLSRFRNFIENERKAEEVLENRKIKVVNERNSVKM+DSSTETAEIGESNNVLQYVCSRLLDSPCPDHLISNCNKDYSDKIINYIINVNRKQAIQIEQLNSDILRNKELIDALTLELINNNEKVKVMKNGYETFTKKVTTEISEMKSLIIKYLDQKIPSDSKPIPNYIYN Sbjct: 1 MNDTKKSSYKSVRKIKDKPAWNDTVSDLNAYKLTPEECLQRKIDHISKNQQIHFHTSQDTPKNDETVYDRLTKVRYGNQIKDSEVNQRRKIIKGMFTTDRELFDLFEQSEKSLSAVESMFGDPLKRYKVNPSVTPAPNFTTVNVKENTNNSNAGALNEFSDSELESSKSELKSTSNHSNNDDLSRFRNFIENERKAEEVLENRKIKVVNERNSVKMEDSSTETAEIGESNNVLQYVCSRLLDSPCPDHLISNCNKDYSDKIINYIINVNRKQAIQIEQLNSDILRNKELIDALTLELINNNEKVKVMKNGYETFTKKVTTEISEMKSLIIKYLDQKIPSDSKPIPNYIYN 350 The following BLAST results are available for this feature:
BLAST of SMED30007588 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30007588 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30007588 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30007588 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 1
BLAST of SMED30007588 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 2
BLAST of SMED30007588 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30007588 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 1
BLAST of SMED30007588 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 5
BLAST of SMED30007588 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30007588 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30007588 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30007588 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 1
BLAST of SMED30007588 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30007588 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 >SMED30007588 ID=SMED30007588|Name=SMED30007588|organism=Schmidtea mediterranea sexual|type=transcript|length=1418bpback to top protein sequence of SMED30007588-orf-1 >SMED30007588-orf-1 ID=SMED30007588-orf-1|Name=SMED30007588-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=414bp MNDTKKSSYKSVRKIKDKPAWNDTVSDLNAYKLTPEECLQRKIDHISKNQback to top Annotated Terms
The following terms have been associated with this transcript:
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