SMED30020464
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., 2020SMED30020464 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 5
Alignments
SMED30020464 aligns in the following genomic locations:
Homology
BLAST of SMED30020464 vs. Planmine SMEST
Match: SMESG000013963.1 (SMESG000013963.1) HSP 1 Score: 679.478 bits (1752), Expect = 0.000e+0 Identity = 377/397 (94.96%), Postives = 378/397 (95.21%), Query Frame = 2 Query: 35 MDVPIYKLDLNENSFGFDKNPNXXXXXXXXXHNVQKDSSDSNLFSQESLLNASNDKNESFWQSLRNLWRKKDCDEASVVNGNNLYHIISKIMTIIDQLENNVNDISSKVNSIESIINIFDNKVIKDVLKSTQSLNKKSEKTKIQCTDILSDMEFLKEGINSNLIAIQSAVEREELRNNADEISNDLSAQILMKFQSILENCLSELSADILVQWNDVLYNIYSDSSTRPXXXXXXXXXXXXXSPGIFLINSLRRSERLQNRNDLELTSFNRKEIMLIKENRFENIPNKSKSTKKVLPNKGVNNPPEINSHKSIPIKRSLEIFKYYEESQSDLISNELRFIYVQIISPNFIYYRKQKLTNKRSNVKIFKKDKSYDMVISANSCYDSEADLISLRKLFNC 1225 MDVPIYKLDLNENSFGFDKNPNKKGKKSSSSHNVQKDSSDSNLFSQESLLNASNDKNESFWQSLRNLWRKKDCDEASVVNGNNLYHIISKIMTIIDQLENNVNDISSKVNSIESIINIFDNKVIKDVLKSTQSLNKKSEKTKIQCTDILSDMEFLKEGINSNLIAIQSAVE EELRNNADEISNDLSAQILMKFQSILENCLSELSADILVQWNDVLYNIYSDSSTRPKKKKEKHIKEIRKSPG FLINSLRRSERLQNRNDLELTSFNRKEIMLIKENRFENIPNKSKSTKKVLP+KGVNNPPEINSHKSIPIKRSLEIFKYYEESQSDLISNE KQKLTNKRSNVKIFKKDKSYDMVISANSCYDSEADLISLRKLFNC Sbjct: 1 MDVPIYKLDLNENSFGFDKNPNKKGKKSSSSHNVQKDSSDSNLFSQESLLNASNDKNESFWQSLRNLWRKKDCDEASVVNGNNLYHIISKIMTIIDQLENNVNDISSKVNSIESIINIFDNKVIKDVLKSTQSLNKKSEKTKIQCTDILSDMEFLKEGINSNLIAIQSAVESEELRNNADEISNDLSAQILMKFQSILENCLSELSADILVQWNDVLYNIYSDSSTRPKKKKEKHIKEIRKSPGNFLINSLRRSERLQNRNDLELTSFNRKEIMLIKENRFENIPNKSKSTKKVLPSKGVNNPPEINSHKSIPIKRSLEIFKYYEESQSDLISNE-----------------KQKLTNKRSNVKIFKKDKSYDMVISANSCYDSEADLISLRKLFNC 380
BLAST of SMED30020464 vs. Planmine SMEST
Match: SMESG000013963.1 (SMESG000013963.1) HSP 1 Score: 643.269 bits (1658), Expect = 0.000e+0 Identity = 361/397 (90.93%), Postives = 363/397 (91.44%), Query Frame = 2 Query: 35 MDVPIYKLDLNENSFGFDKNPNXXXXXXXXXHNVQKDSSDSNLFSQESLLNASNDKNESFWQSLRNLWRKKDCDEASVVNGNNLYHIISKIMTIIDQLENNVNDISSKVNSIESIINIFDNKVIKDVLKSTQSLNKKSEKTKIQCTDILSDMEFLKEGINSNLIAIQSAVEREELRNNADEISNDLSAQILMKFQSILENCLSELSADILVQWNDVLYNIYSDSSTRPXXXXXXXXXXXXXSPGIFLINSLRRSERLQNRNDLELTSFNRKEIMLIKENRFENIPNKSKSTKKVLPNKGVNNPPEINSHKSIPIKRSLEIFKYYEESQSDLISNELRFIYVQIISPNFIYYRKQKLTNKRSNVKIFKKDKSYDMVISANSCYDSEADLISLRKLFNC 1225 MDVPIYKLDLNENSFGFDKNPNKKGKKSSSSHNVQKDSSDSNLFSQESLLNASNDKNESFWQSLRNLWRKKDCDEASVVNGNNLYHIISKIMTIIDQLENNVNDISSKVNSIESIINIFDNKVIKDVLKSTQSLNKKSEKTKIQCTDILSDMEFLKEGINSNLIAIQSAVE EELRNNADEISNDLSAQILMKFQSILENCLSELSADILVQWNDVLYNIYSDSSTRPKKKKEKHIKEIRKSPG FLINSLRRSERLQNRNDLELTSFNRKEIMLIKENRFENIPNKSKSTKKVLP+KGVNNPPEINSHKSIPIKRSLE+ KQKLTNKRSNVKIFKKDKSYDMVISANSCYDSEADLISLRKLFNC Sbjct: 1 MDVPIYKLDLNENSFGFDKNPNKKGKKSSSSHNVQKDSSDSNLFSQESLLNASNDKNESFWQSLRNLWRKKDCDEASVVNGNNLYHIISKIMTIIDQLENNVNDISSKVNSIESIINIFDNKVIKDVLKSTQSLNKKSEKTKIQCTDILSDMEFLKEGINSNLIAIQSAVESEELRNNADEISNDLSAQILMKFQSILENCLSELSADILVQWNDVLYNIYSDSSTRPKKKKEKHIKEIRKSPGNFLINSLRRSERLQNRNDLELTSFNRKEIMLIKENRFENIPNKSKSTKKVLPSKGVNNPPEINSHKSIPIKRSLEM--------------------------------KQKLTNKRSNVKIFKKDKSYDMVISANSCYDSEADLISLRKLFNC 365
BLAST of SMED30020464 vs. Planmine SMEST
Match: SMESG000013955.1 (SMESG000013955.1) HSP 1 Score: 445.277 bits (1144), Expect = 1.161e-157 Identity = 248/275 (90.18%), Postives = 252/275 (91.64%), Query Frame = 2 Query: 401 VIKDVLKSTQSLNKKSEKTKIQCTDILSDMEFLKEGINSNLIAIQSAVEREELRNNADEISNDLSAQILMKFQSILENCLSELSADILVQWNDVLYNIYSDSSTRPXXXXXXXXXXXXXSPGIFLINSLRRSERLQNRNDLELTSFNRKEIMLIKENRFENIPNKSKSTKKVLPNKGVNNPPEINSHKSIPIKRSLEIFKYYEESQSDLISNELRFIYVQIISPNFIYYRKQKLTNKRSNVKIFKKDKSYDMVISANSCYDSEADLISLRKLFNC 1225 V K++LKSTQSLNKKSEKTKIQCTDILSDMEFLKEGIN+NLIAIQSAVE EELRNNADE+SNDLSAQILMKFQSILENCLSELSADILVQWNDVLYNIYSDSSTRPKKKKEKHIKEI KSPG FLINSLRRSERLQNRNDLELTSFNRKEIMLIKENRFENIPNKSKSTKKVLPNKGVNNPPEINSHKSIPIKRSLEIFKYYEESQSDLISNE KQKLTNKRSNVKIFKKDKS DMVISANS YDSEADLISLRKLFNC Sbjct: 4 VDKNILKSTQSLNKKSEKTKIQCTDILSDMEFLKEGINNNLIAIQSAVESEELRNNADELSNDLSAQILMKFQSILENCLSELSADILVQWNDVLYNIYSDSSTRPKKKKEKHIKEIHKSPGNFLINSLRRSERLQNRNDLELTSFNRKEIMLIKENRFENIPNKSKSTKKVLPNKGVNNPPEINSHKSIPIKRSLEIFKYYEESQSDLISNE-----------------KQKLTNKRSNVKIFKKDKSCDMVISANSYYDSEADLISLRKLFNC 261
BLAST of SMED30020464 vs. Planmine SMEST
Match: SMESG000041991.1 (SMESG000041991.1) HSP 1 Score: 200.675 bits (509), Expect = 5.505e-63 Identity = 108/128 (84.38%), Postives = 122/128 (95.31%), Query Frame = 2 Query: 35 MDVPIYKLDLNENSFGFDKNPNXXXXXXXXXHNVQKDSSDSNLFSQESLLNASNDKNESFWQSLRNLWRKKDCDEASVVNGNNLYHIISKIMTIIDQLENNVNDISSKVNSIESIINIFDNKVIKDVL 418 MDVPIYKLDL++NSFG D+NPNKKGKKSSSSHNVQKDSSDSNLFS+ESLLNASNDKNESFWQ LRNLWRKKDC EAS+VNGNN YHIISKI TIIDQLENN++DISSK+NS++ IINI+DNKVIK+++ Sbjct: 1 MDVPIYKLDLHKNSFGLDENPNKKGKKSSSSHNVQKDSSDSNLFSKESLLNASNDKNESFWQILRNLWRKKDCHEASLVNGNNFYHIISKITTIIDQLENNIDDISSKINSMKFIINIYDNKVIKELV 128
BLAST of SMED30020464 vs. Planmine SMEST
Match: SMESG000053896.1 (SMESG000053896.1) HSP 1 Score: 189.119 bits (479), Expect = 1.617e-58 Identity = 101/128 (78.91%), Postives = 115/128 (89.84%), Query Frame = 2 Query: 35 MDVPIYKLDLNENSFGFDKNPNXXXXXXXXXHNVQKDSSDSNLFSQESLLNASNDKNESFWQSLRNLWRKKDCDEASVVNGNNLYHIISKIMTIIDQLENNVNDISSKVNSIESIINIFDNKVIKDVL 418 M+VPIYKLDL++N FGFD+NP KKGK S S+NVQ D SDSNLFSQESLLNASNDKNE+FWQS R LWRKKDC+EAS+VNGNN YH ISKIMTIIDQLENNV+DISSKVNS+ SIINI+DNK IK+++ Sbjct: 1 MNVPIYKLDLHKNCFGFDENPIKKGKISLFSYNVQNDRSDSNLFSQESLLNASNDKNENFWQSFRYLWRKKDCNEASLVNGNNFYHKISKIMTIIDQLENNVDDISSKVNSMASIINIYDNKEIKELV 128 The following BLAST results are available for this feature:
BLAST of SMED30020464 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30020464 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30020464 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30020464 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30020464 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30020464 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30020464 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30020464 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30020464 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30020464 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30020464 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30020464 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30020464 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30020464 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 >SMED30020464 ID=SMED30020464|Name=SMED30020464|organism=Schmidtea mediterranea sexual|type=transcript|length=1235bpback to top protein sequence of SMED30020464-orf-1 >SMED30020464-orf-1 ID=SMED30020464-orf-1|Name=SMED30020464-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=398bp MDVPIYKLDLNENSFGFDKNPNKKGKKSSSSHNVQKDSSDSNLFSQESLLback to top Annotated Terms
The following terms have been associated with this transcript:
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