SMED30035526
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., 2020SMED30035526 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 17Note: Hover over icons to view figure legend
Homology
BLAST of SMED30035526 vs. Planmine SMEST
Match: SMESG000018598.1 (SMESG000018598.1) HSP 1 Score: 149.443 bits (376), Expect = 1.380e-48 Identity = 73/73 (100.00%), Postives = 73/73 (100.00%), Query Frame = 1 Query: 10 MDHHATFLKIDSNKNGIITLKEFEDAKKSIGKADAEAIRKQFESNSGNNITYAEFCNLFGIAPDDGTMKKFKK 228 MDHHATFLKIDSNKNGIITLKEFEDAKKSIGKADAEAIRKQFESNSGNNITYAEFCNLFGIAPDDGTMKKFKK Sbjct: 1 MDHHATFLKIDSNKNGIITLKEFEDAKKSIGKADAEAIRKQFESNSGNNITYAEFCNLFGIAPDDGTMKKFKK 73
BLAST of SMED30035526 vs. Planmine SMEST
Match: SMESG000018602.1 (SMESG000018602.1) HSP 1 Score: 79.7221 bits (195), Expect = 5.568e-21 Identity = 38/74 (51.35%), Postives = 55/74 (74.32%), Query Frame = 1 Query: 10 MDHHATFLKIDSNKNGIITLKEFEDAKKSIGKADA-EAIRKQFESNSGNNITYAEFCNLFGIAPDDGTMKKFKK 228 MD H F+KID +KNG+IT KEF++A+KS GK + E ++K F+SN G++ITYA++C+ GI+P+ K FKK Sbjct: 1 MDRHQIFVKIDHDKNGLITKKEFDEAQKSFGKEETIEILKKCFDSNGGSSITYADYCSAVGISPNASIQKSFKK 74
BLAST of SMED30035526 vs. Planmine SMEST
Match: SMESG000002907.1 (SMESG000002907.1) HSP 1 Score: 48.1358 bits (113), Expect = 1.428e-8 Identity = 28/70 (40.00%), Postives = 39/70 (55.71%), Query Frame = 1 Query: 28 FLKIDSNKNGIITLKEFEDAKKSIGKADAEAIR---KQFESNSGNNITYAEFCNLFGIAPDDGTMKKFKK 228 FLKID+NKNG+I++ E + D EAI+ K F+ + N+TY EF GI + T+ FKK Sbjct: 10 FLKIDTNKNGVISIDELKQHCSKTANVD-EAIKTFLKNFDKDKDKNVTYEEFAKALGIPVSEKTLSVFKK 78
BLAST of SMED30035526 vs. Planmine SMEST
Match: SMESG000048475.1 (SMESG000048475.1) HSP 1 Score: 42.743 bits (99), Expect = 1.467e-6 Identity = 24/69 (34.78%), Postives = 35/69 (50.72%), Query Frame = 1 Query: 28 FLKIDSNKNGIITLKEFEDAKKSIGKAD--AEAIRKQFESNSGNNITYAEFCNLFGIAPDDGTMKKFKK 228 FL +D NKNGII+++E D E K F++N ITY EF + G ++ T+ F+K Sbjct: 10 FLAVDINKNGIISVEELRKHCSKCSNVDEAVEKFLKNFDTNRDREITYKEFADALGYPLNEKTLALFQK 78 The following BLAST results are available for this feature:
BLAST of SMED30035526 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30035526 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30035526 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30035526 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30035526 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30035526 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30035526 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30035526 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30035526 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30035526 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30035526 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30035526 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30035526 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30035526 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 >SMED30035526 ID=SMED30035526|Name=SMED30035526|organism=Schmidtea mediterranea sexual|type=transcript|length=315bpback 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
|