SMED30026114
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., 2020SMED30026114 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 10Note: Hover over icons to view figure legend
Alignments
SMED30026114 aligns in the following genomic locations:
Homology
BLAST of SMED30026114 vs. Planmine SMEST
Match: SMESG000006121.1 (SMESG000006121.1) HSP 1 Score: 246.128 bits (627), Expect = 8.429e-85 Identity = 137/138 (99.28%), Postives = 138/138 (100.00%), Query Frame = 3 Query: 51 MKLMXXXXXXXXXXXXXDGGFQRAFEMSRKSAFEMPMECYKLIQKMYASCESKCDQYDMECFKDYTSVYKSYKEDFQRFKSKCMEKSDLASSNCLLMFDTLEDDFFANFDKVDKKCSAKYITMTKYCVKEFNEIENCE 464 MKLMFVLIV+FVLVINIDGGFQRAFEMSRKSAFEMPMECYKLIQKMYASCESKCDQYDMECFKDYTSVYKSYKEDFQRFKSKCMEKSDLASSNCLLMFDTLEDDFFANFDKVDKKCSAKYITMTKYCVKEFNEIENCE Sbjct: 1 MKLMFVLIVMFVLVINIDGGFQRAFEMSRKSAFEMPMECYKLIQKMYASCESKCDQYDMECFKDYTSVYKSYKEDFQRFKSKCMEKSDLASSNCLLMFDTLEDDFFANFDKVDKKCSAKYITMTKYCVKEFNEIENCE 138
BLAST of SMED30026114 vs. Planmine SMEST
Match: SMESG000006121.1 (SMESG000006121.1) HSP 1 Score: 242.276 bits (617), Expect = 1.951e-83 Identity = 121/121 (100.00%), Postives = 121/121 (100.00%), Query Frame = 3 Query: 102 DGGFQRAFEMSRKSAFEMPMECYKLIQKMYASCESKCDQYDMECFKDYTSVYKSYKEDFQRFKSKCMEKSDLASSNCLLMFDTLEDDFFANFDKVDKKCSAKYITMTKYCVKEFNEIENCE 464 DGGFQRAFEMSRKSAFEMPMECYKLIQKMYASCESKCDQYDMECFKDYTSVYKSYKEDFQRFKSKCMEKSDLASSNCLLMFDTLEDDFFANFDKVDKKCSAKYITMTKYCVKEFNEIENCE Sbjct: 9 DGGFQRAFEMSRKSAFEMPMECYKLIQKMYASCESKCDQYDMECFKDYTSVYKSYKEDFQRFKSKCMEKSDLASSNCLLMFDTLEDDFFANFDKVDKKCSAKYITMTKYCVKEFNEIENCE 129
BLAST of SMED30026114 vs. Planmine SMEST
Match: SMESG000006132.1 (SMESG000006132.1) HSP 1 Score: 56.6102 bits (135), Expect = 1.511e-10 Identity = 31/127 (24.41%), Postives = 61/127 (48.03%), Query Frame = 3 Query: 111 FQRAFEMSRKSAFEMPME---------CYKLIQKMYASCESKCDQYDMECFKDYTSVYKSYKEDFQRFKSKCMEKSDLASSNCLLMFDTLEDDFFANFDKVDKKCSAKYITMTKYCVKEFNEIENCE 464 + F +SR +P E C K+ K+Y C++K D+ ++C++ ++ E F+ F+ C E + S CL F+ + + FF +DK++ +C + + C E+ ++ +CE Sbjct: 15 INKTFSLSRIDRRVLPFERDYEVVTDECQKIQYKIYHECKAKLDEIKVQCYEKLLPLHLKNLEKFKLFQESCPETGKVISHECLEKFEGIGEQFFIEYDKIENECDMNLESKSHDCHSEYAKVTDCE 141
BLAST of SMED30026114 vs. Planmine SMEST
Match: SMESG000006122.1 (SMESG000006122.1) HSP 1 Score: 55.8398 bits (133), Expect = 3.466e-10 Identity = 30/127 (23.62%), Postives = 60/127 (47.24%), Query Frame = 3 Query: 111 FQRAFEMSRKSAFEMPME---------CYKLIQKMYASCESKCDQYDMECFKDYTSVYKSYKEDFQRFKSKCMEKSDLASSNCLLMFDTLEDDFFANFDKVDKKCSAKYITMTKYCVKEFNEIENCE 464 + F +SR +P E C K+ K+Y C++K D+ ++C++ ++ E F+ F+ C E + CL F+ + + FF +DK++ +C + + C E+ ++ +CE Sbjct: 15 INKTFSLSRIDRRVLPFERDYEVVTDECQKIQYKIYHECKAKLDEIKVQCYEKLLPLHLKNLEKFKLFQESCPETGKVIGHECLEKFEGIGEQFFIEYDKIENECDMNLESKSHDCHSEYAKVTDCE 141
BLAST of SMED30026114 vs. Planmine SMEST
Match: SMESG000021388.1 (SMESG000021388.1) HSP 1 Score: 47.3654 bits (111), Expect = 4.094e-7 Identity = 27/102 (26.47%), Postives = 50/102 (49.02%), Query Frame = 3 Query: 159 MECYKLIQKMYASCESKCDQYDMECFKDYTSVYKSYKEDFQRFKSKCMEKSDLASSNCLLMFDTLEDDFFANFDKVDKKCSAKYITMTKYCVKEFNEIENCE 464 M+C K + K+ A C+ K D D +C Y +YK+ ++ + +C + S NC+ + L+ + ++D+ C +Y + YC + + ENCE Sbjct: 39 MKCTKFLDKVDAECDKKYDLLDNDCNGSYKQLYKTCDVNYLKLSGRCQMR---LSKNCIKKYGKLDRHCIKAYGEIDESCDKRYAKLDPYCDALYTKEENCE 137 The following BLAST results are available for this feature:
BLAST of SMED30026114 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30026114 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30026114 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30026114 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30026114 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30026114 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30026114 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30026114 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30026114 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30026114 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30026114 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30026114 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30026114 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30026114 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 >SMED30026114 ID=SMED30026114|Name=SMED30026114|organism=Schmidtea mediterranea sexual|type=transcript|length=514bpback to top protein sequence of SMED30026114-orf-1 >SMED30026114-orf-1 ID=SMED30026114-orf-1|Name=SMED30026114-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=144bp MKLMFVLIVIFVLVINIDGGFQRAFEMSRKSAFEMPMECYKLIQKMYASCback to top Aliases
The feature 'SMED30026114' has the following synonyms
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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