SMED30005359
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., 2020SMED30005359 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 2
Homology
BLAST of SMED30005359 vs. TrEMBL
Match: A0A267EBH1 (Uncharacterized protein OS=Macrostomum lignano OX=282301 GN=BOX15_Mlig022930g2 PE=4 SV=1) HSP 1 Score: 68.5514 bits (166), Expect = 2.486e-9 Identity = 44/113 (38.94%), Postives = 63/113 (55.75%), Query Frame = 2 Query: 242 RLTGDLPKNVTEIRLLHKNLMNLSRQRSRVQQEFILRKNNFIDSQ--KIKSKSMKDLLSKIDINQYRDRDTNAVEIYKQKSFEIKEKIIRDRFGG---DIPNKYLRKSFSSRL 565 R+ GDLP+NVTE RL L +L+ +R ++ E +N FID Q K +SKS+ LL +DI QYR++ + VE Q+S K I+ +R G D +K+ SRL Sbjct: 58 RMGGDLPENVTEERLYQTRLYDLALERKKMMNESDYVRNQFIDHQVRKARSKSLGRLLQGMDIEQYRNKSASGVEKLHQRSVHAKLMILANRRLGLSIDEVSKFTEAELRSRL 170
BLAST of SMED30005359 vs. TrEMBL
Match: A0A267FKE4 (Uncharacterized protein OS=Macrostomum lignano OX=282301 GN=BOX15_Mlig022930g1 PE=4 SV=1) HSP 1 Score: 68.5514 bits (166), Expect = 2.509e-9 Identity = 44/113 (38.94%), Postives = 63/113 (55.75%), Query Frame = 2 Query: 242 RLTGDLPKNVTEIRLLHKNLMNLSRQRSRVQQEFILRKNNFIDSQ--KIKSKSMKDLLSKIDINQYRDRDTNAVEIYKQKSFEIKEKIIRDRFGG---DIPNKYLRKSFSSRL 565 R+ GDLP+NVTE RL L +L+ +R ++ E +N FID Q K +SKS+ LL +DI QYR++ + VE Q+S K I+ +R G D +K+ SRL Sbjct: 58 RMGGDLPENVTEERLYQTRLYDLALERKKMMNESDYVRNQFIDHQVRKARSKSLGRLLQGMDIEQYRNKSASGVEKLHQRSVHAKLMILANRRLGLSIDEVSKFTEAELRSRL 170
BLAST of SMED30005359 vs. TrEMBL
Match: A0A267FTB8 (Uncharacterized protein OS=Macrostomum lignano OX=282301 GN=BOX15_Mlig022930g3 PE=4 SV=1) HSP 1 Score: 68.5514 bits (166), Expect = 2.532e-9 Identity = 44/113 (38.94%), Postives = 63/113 (55.75%), Query Frame = 2 Query: 242 RLTGDLPKNVTEIRLLHKNLMNLSRQRSRVQQEFILRKNNFIDSQ--KIKSKSMKDLLSKIDINQYRDRDTNAVEIYKQKSFEIKEKIIRDRFGG---DIPNKYLRKSFSSRL 565 R+ GDLP+NVTE RL L +L+ +R ++ E +N FID Q K +SKS+ LL +DI QYR++ + VE Q+S K I+ +R G D +K+ SRL Sbjct: 58 RMGGDLPENVTEERLYQTRLYDLALERKKMMNESDYVRNQFIDHQVRKARSKSLGRLLQGMDIEQYRNKSASGVEKLHQRSVHAKLMILANRRLGLSIDEVSKFTEAELRSRL 170
BLAST of SMED30005359 vs. Planmine SMEST
Match: SMESG000033501.1 (SMESG000033501.1) HSP 1 Score: 488.034 bits (1255), Expect = 8.893e-177 Identity = 238/242 (98.35%), Postives = 239/242 (98.76%), Query Frame = 2 Query: 125 MNGSNTIQKTVESPSKSQREIVKWAYSSLYTPENKIAYERLTGDLPKNVTEIRLLHKNLMNLSRQRSRVQQEFILRKNNFIDSQKIKSKSMKDLLSKIDINQYRDRDTNAVEIYKQKSFEIKEKIIRDRFGGDIPNKYLRKSFSSRLMTNSDMRVSSAGLPILPKSDNKVIHSARTCRTLDDRYWSQVTSDRRHKELIDLLSPVSLQFQKALDVCEIVKSIDSLTPLIDQKLYMEDTKSGFS 850 MNGSNTIQKTVESPSKSQREIVKWAYSSLYTPENKIAYERLTGDLPKNVTEIRLLHKNLMNLSRQRSRVQQEFILRKNNFIDSQKIKSKSMKD LSKIDINQYRDRDTNAVEIYKQKSFEIKEKIIRDRFGGDIPNKYLRKSFSSRLMTNSDMRVSSAGLPILP+SDNKVIHSARTCRTLDDRYWSQV SDRRHKELIDLLSPVSLQFQKALDVCEIVKSIDSLTP IDQKLYMEDTKSGFS Sbjct: 1 MNGSNTIQKTVESPSKSQREIVKWAYSSLYTPENKIAYERLTGDLPKNVTEIRLLHKNLMNLSRQRSRVQQEFILRKNNFIDSQKIKSKSMKDFLSKIDINQYRDRDTNAVEIYKQKSFEIKEKIIRDRFGGDIPNKYLRKSFSSRLMTNSDMRVSSAGLPILPQSDNKVIHSARTCRTLDDRYWSQVASDRRHKELIDLLSPVSLQFQKALDVCEIVKSIDSLTPFIDQKLYMEDTKSGFS 242 The following BLAST results are available for this feature:
BLAST of SMED30005359 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30005359 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30005359 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30005359 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30005359 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30005359 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30005359 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30005359 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 3
BLAST of SMED30005359 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30005359 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30005359 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30005359 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30005359 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30005359 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 1
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30005359 ID=SMED30005359|Name=SMED30005359|organism=Schmidtea mediterranea sexual|type=transcript|length=899bpback to top protein sequence of SMED30005359-orf-1 >SMED30005359-orf-1 ID=SMED30005359-orf-1|Name=SMED30005359-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=243bp MNGSNTIQKTVESPSKSQREIVKWAYSSLYTPENKIAYERLTGDLPKNVTback 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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