SMED30010364
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., 2020SMED30010364 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 44Note: Hover over icons to view figure legend
Alignments
SMED30010364 aligns in the following genomic locations:
Homology
BLAST of SMED30010364 vs. Planmine SMEST
Match: SMESG000044775.1 (SMESG000044775.1) HSP 1 Score: 117.857 bits (294), Expect = 2.027e-29 Identity = 56/70 (80.00%), Postives = 60/70 (85.71%), Query Frame = 1 Query: 1 SADESNHLSLVANDELTANKICCFEPLEKLSKDIEVNSRVFCYLLKDGGTCEWLGLINGKEYVGILFDEI 210 SADESNHL L NDELTAN ICCFEPL+KLSKDI+VNSRVFC LK GG C+W+GLINGK YVGI FDEI Sbjct: 376 SADESNHLPLADNDELTANNICCFEPLDKLSKDIKVNSRVFCQQLKAGGKCKWMGLINGKGYVGIGFDEI 445 HSP 2 Score: 30.8018 bits (68), Expect = 2.027e-29 Identity = 14/27 (51.85%), Postives = 22/27 (81.48%), Query Frame = 3 Query: 258 HRRT-RSDQISEILQIDYRIQMIPIQC 335 HRR R +++S IL+ID RI++IP++C Sbjct: 446 HRRAERFNKLSRILKIDDRIRIIPLEC 472 HSP 3 Score: 118.242 bits (295), Expect = 3.435e-28 Identity = 56/71 (78.87%), Postives = 60/71 (84.51%), Query Frame = 1 Query: 1 SADESNHLSLVANDELTANKICCFEPLEKLSKDIEVNSRVFCYLLKDGGTCEWLGLINGKEYVGILFDEIV 213 SADESNHL L NDELTAN ICCFEPL+KLSKDI+VNSRVFC LK GG C W+GLINGK YVGI FDEI+ Sbjct: 177 SADESNHLPLADNDELTANNICCFEPLDKLSKDIKVNSRVFCQQLKAGGKCNWMGLINGKGYVGIEFDEII 247
BLAST of SMED30010364 vs. Planmine SMEST
Match: SMESG000007085.1 (SMESG000007085.1) HSP 1 Score: 118.627 bits (296), Expect = 1.588e-28 Identity = 57/73 (78.08%), Postives = 60/73 (82.19%), Query Frame = 1 Query: 1 SADESNHLSLVANDELTANKICCFEPLEKLSKDIEVNSRVFCYLLKDGGTCEWLGLINGKEYVGILFDEIVNY 219 SADESNHL L NDELTAN ICCFEPL+KLSKDI+VNSRVFC LK GG C W+GLINGK YVGI FDEI Y Sbjct: 102 SADESNHLPLADNDELTANNICCFEPLDKLSKDIKVNSRVFCQQLKAGGKCNWMGLINGKGYVGIEFDEIPEY 174 HSP 2 Score: 104.76 bits (260), Expect = 6.292e-24 Identity = 53/82 (64.63%), Postives = 61/82 (74.39%), Query Frame = 1 Query: 1 SADESNHLSLVANDELTANKICCFEPLEKLSKDIEVNSRVFCYLLKDGGTCEWLGLINGK----EYVGILFDEIVNYSIIYF 234 SADESN L L NDELTAN ICCFEPLEKLS DIEVNSRVFC LK GG C+W+GLINGK + +FD+IV+ I++ Sbjct: 210 SADESNDLPLADNDELTANNICCFEPLEKLSNDIEVNSRVFCQQLKAGGKCKWMGLINGKGVENAKLHFIFDKIVDTGKIFY 291
BLAST of SMED30010364 vs. Planmine SMEST
Match: SMESG000007085.1 (SMESG000007085.1) HSP 1 Score: 118.242 bits (295), Expect = 1.823e-28 Identity = 57/73 (78.08%), Postives = 60/73 (82.19%), Query Frame = 1 Query: 1 SADESNHLSLVANDELTANKICCFEPLEKLSKDIEVNSRVFCYLLKDGGTCEWLGLINGKEYVGILFDEIVNY 219 SADESNHL L NDELTAN ICCFEPL+KLSKDI+VNSRVFC LK GG C W+GLINGK YVGI FDEI Y Sbjct: 102 SADESNHLPLADNDELTANNICCFEPLDKLSKDIKVNSRVFCQQLKAGGKCNWMGLINGKGYVGIEFDEIPEY 174 HSP 2 Score: 114.775 bits (286), Expect = 3.400e-27 Identity = 56/71 (78.87%), Postives = 59/71 (83.10%), Query Frame = 1 Query: 1 SADESNHLSLVANDELTANKICCFEPLEKLSKDIEVNSRVFCYLLKDGGTCEWLGLINGKEYVGILFDEIV 213 SADESN L L NDELTAN ICCFEPLEKLS DIEVNSRVFC LK GG C+W+GLINGK YVGI FDEI+ Sbjct: 210 SADESNDLPLADNDELTANNICCFEPLEKLSNDIEVNSRVFCQQLKAGGKCKWMGLINGKGYVGIEFDEIL 280
BLAST of SMED30010364 vs. Planmine SMEST
Match: SMESG000007085.1 (SMESG000007085.1) HSP 1 Score: 118.627 bits (296), Expect = 1.921e-28 Identity = 57/73 (78.08%), Postives = 60/73 (82.19%), Query Frame = 1 Query: 1 SADESNHLSLVANDELTANKICCFEPLEKLSKDIEVNSRVFCYLLKDGGTCEWLGLINGKEYVGILFDEIVNY 219 SADESNHL L NDELTAN ICCFEPL+KLSKDI+VNSRVFC LK GG C W+GLINGK YVGI FDEI Y Sbjct: 102 SADESNHLPLADNDELTANNICCFEPLDKLSKDIKVNSRVFCQQLKAGGKCNWMGLINGKGYVGIEFDEIPEY 174 HSP 2 Score: 114.39 bits (285), Expect = 4.684e-27 Identity = 56/70 (80.00%), Postives = 58/70 (82.86%), Query Frame = 1 Query: 1 SADESNHLSLVANDELTANKICCFEPLEKLSKDIEVNSRVFCYLLKDGGTCEWLGLINGKEYVGILFDEI 210 SADESN L L NDELTAN ICCFEPLEKLS DIEVNSRVFC LK GG C+W+GLINGK YVGI FDEI Sbjct: 210 SADESNDLPLADNDELTANNICCFEPLEKLSNDIEVNSRVFCQQLKAGGKCKWMGLINGKGYVGIEFDEI 279
BLAST of SMED30010364 vs. Planmine SMEST
Match: SMESG000056845.1 (SMESG000056845.1) HSP 1 Score: 119.013 bits (297), Expect = 2.353e-28 Identity = 56/71 (78.87%), Postives = 60/71 (84.51%), Query Frame = 1 Query: 1 SADESNHLSLVANDELTANKICCFEPLEKLSKDIEVNSRVFCYLLKDGGTCEWLGLINGKEYVGILFDEIV 213 SADESNHL L NDELTAN ICCFEPL+KLSKDI+VNSRVFC LK GG C W+GLINGK YVGI FDEI+ Sbjct: 328 SADESNHLPLADNDELTANNICCFEPLDKLSKDIKVNSRVFCQQLKAGGKCNWMGLINGKGYVGIEFDEII 398 HSP 2 Score: 114.005 bits (284), Expect = 1.391e-26 Identity = 59/95 (62.11%), Postives = 66/95 (69.47%), Query Frame = 1 Query: 1 SADESNHLSLVANDELTANKICCFEPLEKLSKDIEVNSRVFCYLLKDGGTCEWLGLINGKEYVGILFDEIVNYSIIYFCINFFHRLTDAPGVIKY 285 SADESN L L NDELT N ICCFEPLEKLS DIEVNSRVFC LK GG C+W+GLINGK YVGI FDEI + + N R+ G I++ Sbjct: 527 SADESNDLPLTDNDELTENNICCFEPLEKLSNDIEVNSRVFCQQLKAGGKCKWMGLINGKGYVGIEFDEIHRRAERF---NELSRILKIEGRIRF 618 The following BLAST results are available for this feature:
BLAST of SMED30010364 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30010364 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30010364 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30010364 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30010364 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30010364 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30010364 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30010364 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30010364 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30010364 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30010364 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30010364 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30010364 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30010364 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 >SMED30010364 ID=SMED30010364|Name=SMED30010364|organism=Schmidtea mediterranea sexual|type=transcript|length=1348bpback to top protein sequence of SMED30010364-orf-1 >SMED30010364-orf-1 ID=SMED30010364-orf-1|Name=SMED30010364-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=101bp SADESNHLSLVANDELTANKICCFEPLEKLSKDIEVNSRVFCYLLKDGGTback 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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