SMED30001329
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., 2020SMED30001329 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 27Note: Hover over icons to view figure legend
Alignments
SMED30001329 aligns in the following genomic locations:
Homology
BLAST of SMED30001329 vs. Planmine SMEST
Match: SMESG000074416.1 (SMESG000074416.1) HSP 1 Score: 572.007 bits (1473), Expect = 0.000e+0 Identity = 335/404 (82.92%), Postives = 340/404 (84.16%), Query Frame = 2 Query: 2 QLLNSCKRNXXXXXXXXXXXXXXXXCPPNNITITILLKIWNSLKSFTESQIVPLNRTQQFMGNGTNXXXXXXXXXX----------XXXXXXXXEMRFKIITKLFFCRSIKERSKYNLVNSRKRFQIEEFNKNMETKF--------------TEFERFNEKMEAKFTEFEXXXXXXXXXXXXTQLITTKLILGEEEPVQLNKKGNIKQFDSQKYEGKRIKFCYNGRILDNNECLLDCINSRNSFINCYVDFTINIKDMIVVKLKSEMELPETLNININQTLEEVETMIKNISNVDKLAIFK-ITNNRKLVRMKDKDVFVDGDELIVVEKTVGVFLIRSILNVE-TFDKDYENTDFISSLAPKENVDFILFHNKEKLDQDKFIFEYKIPSGSTLDCYTFEM*VSF 1135 QLLNSCK+ CPPNNITITILLKIWNSLKSFTESQIVPLNRTQQF+GNGTN I IILILLIVEMRFKIITKLFFCRSIKERSKYNLVNSRKRFQIEEFNKNMETKF TEFERFNEKME KFTEFENLLKSSSNGSKNTQLITTKLILGEEEPVQLNKKGNIKQFDSQKYEGKRIKFCYNGRILDNNE LLDCINSRNSF NCYVDFTINIKDMIVVKLKSEMELPETLNININQTLEEVETMIK+ISNVDKLAIFK ITNNRKLVRMKDKDVFVDGDELIVVEKT G F IRSILN E DK+YENTDFISSLAPKENVDFILFHNKEKLDQDKFIFEYKIPSGSTLDCYTFE+ F Sbjct: 55 QLLNSCKQ-----------------CPPNNITITILLKIWNSLKSFTESQIVPLNRTQQFIGNGTNSIFYRNQGASEIIAVLILVIIILILLIVEMRFKIITKLFFCRSIKERSKYNLVNSRKRFQIEEFNKNMETKFREFEKFNKNLETKFTEFERFNEKMETKFTEFENLLKSSSNGSKNTQLITTKLILGEEEPVQLNKKGNIKQFDSQKYEGKRIKFCYNGRILDNNEFLLDCINSRNSFNNCYVDFTINIKDMIVVKLKSEMELPETLNININQTLEEVETMIKSISNVDKLAIFKEITNNRKLVRMKDKDVFVDGDELIVVEKTNGKFKIRSILNYEKIIDKEYENTDFISSLAPKENVDFILFHNKEKLDQDKFIFEYKIPSGSTLDCYTFEINPGF 441
BLAST of SMED30001329 vs. Planmine SMEST
Match: SMESG000074416.1 (SMESG000074416.1) HSP 1 Score: 571.237 bits (1471), Expect = 0.000e+0 Identity = 330/404 (81.68%), Postives = 338/404 (83.66%), Query Frame = 2 Query: 2 QLLNSCKRNXXXXXXXXXXXXXXXXCPPNNITITILLKIWNSLKSFTESQIVPLNRTQQFMGNGTNXXXXXXXXXXXXXXXXXX----------EMRFKIITKLFFCRSIKERSKYNLVNSRKRFQIEEFNKNMETKF--------------TEFERFNEKMEAKFTEFEXXXXXXXXXXXXTQLITTKLILGEEEPVQLNKKGNIKQFDSQKYEGKRIKFCYNGRILDNNECLLDCINSRNSFINCYVDFTINIKDMIVVKLKSEMELPETLNININQTLEEVETMIKNISNVDKLAIFK-ITNNRKLVRMKDKDVFVDGDELIVVEKTVGVFLIRSILNVE-TFDKDYENTDFISSLAPKENVDFILFHNKEKLDQDKFIFEYKIPSGSTLDCYTFEM*VSF 1135 QLLNSCK+ CPPNNITITILLKIWNSLKSFTESQIVPLNRTQQF+GNGTN I I+ +LI+ EMRFKIITKLFFCRSIKERSKYNLVNSRKRFQIEEFNKNMETKF TEFERFNEKME KFTEFENLLKSSSNGSKNTQLITTKLILGEEEPVQLNKKGNIKQFDSQKYEGKRIKFCYNGRILDNNE LLDCINSRNSF NCYVDFTINIKDMIVVKLKSEMELPETLNININQTLEEVETMIK+ISNVDKLAIFK ITNNRKLVRMKDKDVFVDGDELIVVEKT G F IRSILN E DK+YENTDFISSLAPKENVDFILFHNKEKLDQDKFIFEYKIPSGSTLDCYTFE+ F Sbjct: 43 QLLNSCKQ-----------------CPPNNITITILLKIWNSLKSFTESQIVPLNRTQQFIGNGTNSIFYRNQGASEIIAVLILVIIILILLIVEMRFKIITKLFFCRSIKERSKYNLVNSRKRFQIEEFNKNMETKFREFEKFNKNLETKFTEFERFNEKMETKFTEFENLLKSSSNGSKNTQLITTKLILGEEEPVQLNKKGNIKQFDSQKYEGKRIKFCYNGRILDNNEFLLDCINSRNSFNNCYVDFTINIKDMIVVKLKSEMELPETLNININQTLEEVETMIKSISNVDKLAIFKEITNNRKLVRMKDKDVFVDGDELIVVEKTNGKFKIRSILNYEKIIDKEYENTDFISSLAPKENVDFILFHNKEKLDQDKFIFEYKIPSGSTLDCYTFEINPGF 429
BLAST of SMED30001329 vs. Planmine SMEST
Match: SMESG000074416.1 (SMESG000074416.1) HSP 1 Score: 567 bits (1460), Expect = 0.000e+0 Identity = 319/404 (78.96%), Postives = 327/404 (80.94%), Query Frame = 2 Query: 2 QLLNSCKRNXXXXXXXXXXXXXXXXCPPNNITITILLKIWNSLKSFTESQIVPLNRTQQFMGNGTNXXXXXXXXXXXXXXXXXX----------EMRFKIITKLFFCRSIKERSKYNLVNSRKRFQIEEFNKNMETKF--------------TEFERFNEKMEAKFTEFEXXXXXXXXXXXXTQLITTKLILGEEEPVQLNKKGNIKQFDSQKYEGKRIKFCYNGRILDNNECLLDCINSRNSFINCYVDFTINIKDMIVVKLKSEMELPETLNININQTLEEVETMIKNISNVDKLAIFK-ITNNRKLVRMKDKDVFVDGDELIVVEKTVGVFLIRSILNVE-TFDKDYENTDFISSLAPKENVDFILFHNKEKLDQDKFIFEYKIPSGSTLDCYTFEM*VSF 1135 QLLNSCK+ CPPNNITITILLKIWNSLKSFTESQIVPLNRTQQF+GNGTN I I+ +LI+ EMRFKIITKLFFCRSIKERSKYNLVNSRKRFQIEEFNKNMETKF TEFERFNEKME KFTEFEN TQLITTKLILGEEEPVQLNKKGNIKQFDSQKYEGKRIKFCYNGRILDNNE LLDCINSRNSF NCYVDFTINIKDMIVVKLKSEMELPETLNININQTLEEVETMIK+ISNVDKLAIFK ITNNRKLVRMKDKDVFVDGDELIVVEKT G F IRSILN E DK+YENTDFISSLAPKENVDFILFHNKEKLDQDKFIFEYKIPSGSTLDCYTFE+ F Sbjct: 43 QLLNSCKQ-----------------CPPNNITITILLKIWNSLKSFTESQIVPLNRTQQFIGNGTNSIFYRNQGASEIIAVLILVIIILILLIVEMRFKIITKLFFCRSIKERSKYNLVNSRKRFQIEEFNKNMETKFREFEKFNKNLETKFTEFERFNEKMETKFTEFEN-----------TQLITTKLILGEEEPVQLNKKGNIKQFDSQKYEGKRIKFCYNGRILDNNEFLLDCINSRNSFNNCYVDFTINIKDMIVVKLKSEMELPETLNININQTLEEVETMIKSISNVDKLAIFKEITNNRKLVRMKDKDVFVDGDELIVVEKTNGKFKIRSILNYEKIIDKEYENTDFISSLAPKENVDFILFHNKEKLDQDKFIFEYKIPSGSTLDCYTFEINPGF 418
BLAST of SMED30001329 vs. Planmine SMEST
Match: SMESG000074416.1 (SMESG000074416.1) HSP 1 Score: 566.614 bits (1459), Expect = 0.000e+0 Identity = 324/404 (80.20%), Postives = 329/404 (81.44%), Query Frame = 2 Query: 2 QLLNSCKRNXXXXXXXXXXXXXXXXCPPNNITITILLKIWNSLKSFTESQIVPLNRTQQFMGNGTNXXXXXXXXXX----------XXXXXXXXEMRFKIITKLFFCRSIKERSKYNLVNSRKRFQIEEFNKNMETKF--------------TEFERFNEKMEAKFTEFEXXXXXXXXXXXXTQLITTKLILGEEEPVQLNKKGNIKQFDSQKYEGKRIKFCYNGRILDNNECLLDCINSRNSFINCYVDFTINIKDMIVVKLKSEMELPETLNININQTLEEVETMIKNISNVDKLAIFK-ITNNRKLVRMKDKDVFVDGDELIVVEKTVGVFLIRSILNVE-TFDKDYENTDFISSLAPKENVDFILFHNKEKLDQDKFIFEYKIPSGSTLDCYTFEM*VSF 1135 QLLNSCK+ CPPNNITITILLKIWNSLKSFTESQIVPLNRTQQF+GNGTN I IILILLIVEMRFKIITKLFFCRSIKERSKYNLVNSRKRFQIEEFNKNMETKF TEFERFNEKME KFTEFEN TQLITTKLILGEEEPVQLNKKGNIKQFDSQKYEGKRIKFCYNGRILDNNE LLDCINSRNSF NCYVDFTINIKDMIVVKLKSEMELPETLNININQTLEEVETMIK+ISNVDKLAIFK ITNNRKLVRMKDKDVFVDGDELIVVEKT G F IRSILN E DK+YENTDFISSLAPKENVDFILFHNKEKLDQDKFIFEYKIPSGSTLDCYTFE+ F Sbjct: 55 QLLNSCKQ-----------------CPPNNITITILLKIWNSLKSFTESQIVPLNRTQQFIGNGTNSIFYRNQGASEIIAVLILVIIILILLIVEMRFKIITKLFFCRSIKERSKYNLVNSRKRFQIEEFNKNMETKFREFEKFNKNLETKFTEFERFNEKMETKFTEFEN-----------TQLITTKLILGEEEPVQLNKKGNIKQFDSQKYEGKRIKFCYNGRILDNNEFLLDCINSRNSFNNCYVDFTINIKDMIVVKLKSEMELPETLNININQTLEEVETMIKSISNVDKLAIFKEITNNRKLVRMKDKDVFVDGDELIVVEKTNGKFKIRSILNYEKIIDKEYENTDFISSLAPKENVDFILFHNKEKLDQDKFIFEYKIPSGSTLDCYTFEINPGF 430
BLAST of SMED30001329 vs. Planmine SMEST
Match: SMESG000074407.1 (SMESG000074407.1) HSP 1 Score: 488.419 bits (1256), Expect = 1.069e-168 Identity = 264/286 (92.31%), Postives = 272/286 (95.10%), Query Frame = 2 Query: 272 ITKLFFCRSIKERSKYNLVNSRKRFQIEEFNKNMETKFTEFERFNEKMEAKFTEFEXXXXXXXXXXXXTQLITTKLILGEEEPVQLNKKGNIKQ--FDSQKYEGKRIKFCYNGRILDNNECLLDCINSRNSFINCYVDFTINIKDMIVVKLKSEMELPETLNININQTLEEVETMIKNISNVDKLAIFKITNNRKLVRMKDKDVFVDGDELIVVEKTVGVFLIRSILNVETFDKDYENTDFISSLAPKENVDFILFHNKEKLDQDKFIFEYKIPSGSTLDCYTFEM 1123 ITKLFFCRSIKERSKYNLVNSRKRFQIEEFNKNMETKFTEFERFNEKMEAKFTEFENLLKSSSNGSKNTQ I+ K IL +EEP+QLN + NIK+ F Q EGKR+K YNGRILDNNECLLDCINSRNSFINCYVDFTINIKDMIVVKLKSEMELPETLNININQTLEEVETMIK+ISNVDKLAIFKITNNRKLVRMKDKDVFVDGDELIVVEKTVGVFLIRSILNVETFDKDYENTDFISSLAPKENVDFILFHNKEKLDQDKFIFEYKIPSGSTLDCYTFE+ Sbjct: 9 ITKLFFCRSIKERSKYNLVNSRKRFQIEEFNKNMETKFTEFERFNEKMEAKFTEFENLLKSSSNGSKNTQPISIKFILDKEEPIQLNIQKNIKKVKFYPQISEGKRMKLYYNGRILDNNECLLDCINSRNSFINCYVDFTINIKDMIVVKLKSEMELPETLNININQTLEEVETMIKSISNVDKLAIFKITNNRKLVRMKDKDVFVDGDELIVVEKTVGVFLIRSILNVETFDKDYENTDFISSLAPKENVDFILFHNKEKLDQDKFIFEYKIPSGSTLDCYTFEI 294 The following BLAST results are available for this feature:
BLAST of SMED30001329 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30001329 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30001329 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30001329 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30001329 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30001329 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30001329 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30001329 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30001329 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30001329 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30001329 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30001329 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30001329 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30001329 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 >SMED30001329 ID=SMED30001329|Name=SMED30001329|organism=Schmidtea mediterranea sexual|type=transcript|length=1604bpback to top protein sequence of SMED30001329-orf-1 >SMED30001329-orf-1 ID=SMED30001329-orf-1|Name=SMED30001329-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=290bp MRFKIITKLFFCRSIKERSKYNLVNSRKRFQIEEFNKNMETKFTEFERFNback to top Annotated Terms
The following terms have been associated with this transcript:
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