SMED30010305
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., 2020SMED30010305 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 5
Alignments
SMED30010305 aligns in the following genomic locations:
Homology
BLAST of SMED30010305 vs. Planmine SMEST
Match: SMESG000065358.1 (SMESG000065358.1) HSP 1 Score: 1020.76 bits (2638), Expect = 0.000e+0 Identity = 520/529 (98.30%), Postives = 521/529 (98.49%), Query Frame = 3 Query: 45 MASKYHSDLFHVPSCEILEFCNNNHDLNKELIAQELKCCMEKCKVLAGKLNIKSENLNNFQKMLIKKEDRILNLTNNLEKFINCKIKSHVDKASYDTSAKYDKLKMKYDSLNKYYQRILKSFETMKTNNTNLKEKITNFRXXXXXXXXXXXXXXXRISSHTTNKKNSVLIELQDISTQTQQGIQLRNLQIKNNYHETGCDELAVSHLSLIMAMWTGLFHSSFTSDFTGRCHPPGECLIELCTSIIPMAITGLKSSLMLDNRLPSNATISATKFDSAMQYMKLIHWSFVYIDIRRVTLKNATISTMNRLAEDLITILRAISSSDMGKWAFLKQNNKGQILISLVALRNANLINDYIWVISFIMEISQNEEIRVGFLSNVIFVPLLCRSTATFNFHGPITVKIINFIHQSLDLKSEISLDHGHIVGNLSGLEQIIHIALQMPIVSSESSPKNYHIFVVLLDLLCSCQNSDKDLVIDIVERIVVNKSARKLFKEIGIVSSITHLISKYNDNSNLQISPRSVVKLKSIVSHLN 1631 MASKYHSDLFHVPSCEILEFCNNNHDLNKELI QELKCCMEKCKVLAGKLNIKSENLNNFQKMLIKKEDRILNLTNNLEKFINCKIKSHVDKASYDTSAKYD LKMKYDSLNK YQRILKSFETMKTNNTNLK KITNFRLNEEELKNEVNKLKLRISSH TNKKNSVLIELQDISTQTQQGIQLRNLQIKNNYHETGCDELAVSHLSLI+AMWTGLFHSSFTSDFTGRCHPPGECLIELCTSIIPMAITGLKSSLMLDNR PSNATISATKFDSAMQYMKLIHWSFVYIDIRRVTLKNATISTMNRLAEDLITILRAISSSDMGKWAFLKQN KGQILISLVALRNANLINDYIWVISFIMEISQNEEI VGFLSNVIFVPLLCRSTATFNFHGPITVKIINFIHQSLDLKSEISLDHGHIVGNLSGLEQIIHIALQMPIVSSESSPKNYHIFVVLLDLLCSCQNSDKDLVIDIVERIVVNKSARKLFKEIGIVSSITHLISKYNDNSNLQISPRSVVKLKSIVSHLN Sbjct: 1 MASKYHSDLFHVPSCEILEFCNNNHDLNKELIGQELKCCMEKCKVLAGKLNIKSENLNNFQKMLIKKEDRILNLTNNLEKFINCKIKSHVDKASYDTSAKYDNLKMKYDSLNKDYQRILKSFETMKTNNTNLKGKITNFRLNEEELKNEVNKLKLRISSHATNKKNSVLIELQDISTQTQQGIQLRNLQIKNNYHETGCDELAVSHLSLIIAMWTGLFHSSFTSDFTGRCHPPGECLIELCTSIIPMAITGLKSSLMLDNRQPSNATISATKFDSAMQYMKLIHWSFVYIDIRRVTLKNATISTMNRLAEDLITILRAISSSDMGKWAFLKQNIKGQILISLVALRNANLINDYIWVISFIMEISQNEEIHVGFLSNVIFVPLLCRSTATFNFHGPITVKIINFIHQSLDLKSEISLDHGHIVGNLSGLEQIIHIALQMPIVSSESSPKNYHIFVVLLDLLCSCQNSDKDLVIDIVERIVVNKSARKLFKEIGIVSSITHLISKYNDNSNLQISPRSVVKLKSIVSHLN 529
BLAST of SMED30010305 vs. Planmine SMEST
Match: SMESG000065358.1 (SMESG000065358.1) HSP 1 Score: 460.685 bits (1184), Expect = 6.667e-158 Identity = 248/280 (88.57%), Postives = 255/280 (91.07%), Query Frame = 3 Query: 360 MKYDSLNKYYQRILKSFETMKTNNTNLKEKITNFRXXXXXXXXXXXXXXXRISSHTTNKKNSVLIELQDISTQTQQGIQLRNLQIKNNYHETGCDELAVSHLSLIMAMWTGLFHSSFTSDFTGRCHPPGECLIELCTSIIPMAITGLKSSLMLDNRLPSNATISATKFDSAMQYMKLIHWSFVYIDIRRVTLKNATISTMNRLAEDLITILRAISSSDMGKWAFLKQNNKGQILISLVALRNANLINDYIWVISFIMEISQNEEIRVGFLSNVIFVPLLC 1199 MKYDSLNK YQRILKSFETMKTNNTNLK KITNFRLNEEELKNEVNKLKLRISSH TNKKNSVLIELQDISTQTQQGIQLRNLQIKNNYHETGCDELAVSHLSLI+AMWTGLFHSSFTSDFTGRCHPPGECLIELCTSIIPMAITGLKSSLMLDNR PSNATISATKFDSAMQYMKLIHWSFVYIDIRRVTLKNATISTMNRLAEDLITILRAISSSDMGKWAFLKQN KGQILISLVALRNANL + I I+ M I +E + V+ + LLC Sbjct: 1 MKYDSLNKDYQRILKSFETMKTNNTNLKGKITNFRLNEEELKNEVNKLKLRISSHATNKKNSVLIELQDISTQTQQGIQLRNLQIKNNYHETGCDELAVSHLSLIIAMWTGLFHSSFTSDFTGRCHPPGECLIELCTSIIPMAITGLKSSLMLDNRQPSNATISATKFDSAMQYMKLIHWSFVYIDIRRVTLKNATISTMNRLAEDLITILRAISSSDMGKWAFLKQNIKGQILISLVALRNANLRLEQIIHIALQMPIVSSESSPKNYHIFVVLLDLLC 280 HSP 2 Score: 191.43 bits (485), Expect = 4.465e-54 Identity = 96/97 (98.97%), Postives = 97/97 (100.00%), Query Frame = 3 Query: 1329 LEQIIHIALQMPIVSSESSPKNYHIFVVLLDLLCSCQNSDKDLVIDIVERIVVNKSARKLFKEIGIVSSITHLISKYNDNSNLQISPRSVVKLKSIV 1619 LEQIIHIALQMPIVSSESSPKNYHIFVVLLDLLCSCQNSDKDLVIDIVERIVVNKSARKLFKEIGIVSSITHLISKYNDNSNLQISPRSVVKLKSI+ Sbjct: 247 LEQIIHIALQMPIVSSESSPKNYHIFVVLLDLLCSCQNSDKDLVIDIVERIVVNKSARKLFKEIGIVSSITHLISKYNDNSNLQISPRSVVKLKSIM 343
BLAST of SMED30010305 vs. Planmine SMEST
Match: SMESG000065352.1 (SMESG000065352.1) HSP 1 Score: 358.221 bits (918), Expect = 2.117e-120 Identity = 187/194 (96.39%), Postives = 189/194 (97.42%), Query Frame = 3 Query: 360 MKYDSLNKYYQRILKSFETMKTNNTNLKEKITNFRXXXXXXXXXXXXXXXRISSHTTNKKNSVLIELQDISTQTQQGIQLRNLQIKNNYHETGCDELAVSHLSLIMAMWTGLFHSSFTSDFTGRCHPPGECLIELCTSIIPMAITGLKSSLMLDNRLPSNATISATKFDSAMQYMKLIHWSFVYIDIRRVTLKN 941 MKYDSLNK YQRILKSFETMKTNNTNLK KITNFR NEEELKNEVNKLKLRISS TNKKNSVLIELQDISTQTQQGIQLRNLQIKNNYHETGCDELAVSHLSLIMAMWTGLFHSSFTSDFTGRCHPPGECLIELCTSIIPMAITGLKSSLMLDNRLPSNATISATKFDSAMQYMKLIHWSFVYIDIRRVTL++ Sbjct: 1 MKYDSLNKDYQRILKSFETMKTNNTNLKGKITNFRSNEEELKNEVNKLKLRISSQATNKKNSVLIELQDISTQTQQGIQLRNLQIKNNYHETGCDELAVSHLSLIMAMWTGLFHSSFTSDFTGRCHPPGECLIELCTSIIPMAITGLKSSLMLDNRLPSNATISATKFDSAMQYMKLIHWSFVYIDIRRVTLQS 194 HSP 2 Score: 244.973 bits (624), Expect = 2.120e-76 Identity = 123/123 (100.00%), Postives = 123/123 (100.00%), Query Frame = 3 Query: 1263 QSLDLKSEISLDHGHIVGNLSGLEQIIHIALQMPIVSSESSPKNYHIFVVLLDLLCSCQNSDKDLVIDIVERIVVNKSARKLFKEIGIVSSITHLISKYNDNSNLQISPRSVVKLKSIVSHLN 1631 QSLDLKSEISLDHGHIVGNLSGLEQIIHIALQMPIVSSESSPKNYHIFVVLLDLLCSCQNSDKDLVIDIVERIVVNKSARKLFKEIGIVSSITHLISKYNDNSNLQISPRSVVKLKSIVSHLN Sbjct: 193 QSLDLKSEISLDHGHIVGNLSGLEQIIHIALQMPIVSSESSPKNYHIFVVLLDLLCSCQNSDKDLVIDIVERIVVNKSARKLFKEIGIVSSITHLISKYNDNSNLQISPRSVVKLKSIVSHLN 315
BLAST of SMED30010305 vs. Planmine SMEST
Match: SMESG000065352.1 (SMESG000065352.1) HSP 1 Score: 356.295 bits (913), Expect = 2.347e-118 Identity = 187/192 (97.40%), Postives = 187/192 (97.40%), Query Frame = 3 Query: 360 MKYDSLNKYYQRILKSFETMKTNNTNLKEKITNFRXXXXXXXXXXXXXXXRISSHTTNKKNSVLIELQDISTQTQQGIQLRNLQIKNNYHETGCDELAVSHLSLIMAMWTGLFHSSFTSDFTGRCHPPGECLIELCTSIIPMAITGLKSSLMLDNRLPSNATISATKFDSAMQYMKLIHWSFVYIDIRRVTL 935 MKYDSLNK YQRILKSFETMKTNNTNLK KITNFR NEEELKNEVNKLKLRISS TNKKNSVLIELQDISTQTQQGIQLRNLQIKNNYHETGCDELAVSHLSLIMAMWTGLFHSSFTSDFTGRCHPPGECLIELCTSIIPMAITGLKSSLMLDNRLPSNATISATKFDSAMQYMKLIHWSFVYIDIRRVTL Sbjct: 1 MKYDSLNKDYQRILKSFETMKTNNTNLKGKITNFRSNEEELKNEVNKLKLRISSQATNKKNSVLIELQDISTQTQQGIQLRNLQIKNNYHETGCDELAVSHLSLIMAMWTGLFHSSFTSDFTGRCHPPGECLIELCTSIIPMAITGLKSSLMLDNRLPSNATISATKFDSAMQYMKLIHWSFVYIDIRRVTL 192 The following BLAST results are available for this feature:
BLAST of SMED30010305 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30010305 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30010305 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30010305 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30010305 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30010305 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30010305 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30010305 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30010305 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30010305 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30010305 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30010305 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30010305 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30010305 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 4
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30010305 ID=SMED30010305|Name=SMED30010305|organism=Schmidtea mediterranea sexual|type=transcript|length=1681bpback to top protein sequence of SMED30010305-orf-1 >SMED30010305-orf-1 ID=SMED30010305-orf-1|Name=SMED30010305-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=530bp MASKYHSDLFHVPSCEILEFCNNNHDLNKELIAQELKCCMEKCKVLAGKLback 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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