ATP-dependent DNA helicase
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., 2020SMED30007244 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 2
Homology
BLAST of ATP-dependent DNA helicase vs. TrEMBL
Match: A0A0C2N3H9 (ATP-dependent DNA helicase OS=Thelohanellus kitauei OX=669202 GN=RF11_10810 PE=3 SV=1) HSP 1 Score: 80.4925 bits (197), Expect = 5.613e-15 Identity = 50/92 (54.35%), Postives = 56/92 (60.87%), Query Frame = 3 Query: 9 KAKIISTWNHNDIVLILRIDLAPTDTALPFILKCRQFPNFPAYAITINKTRCRS-----------IFTWP-----LSRSTVARQVKAYIESN 236 KAKIIS N D VLI RIDLAPT+T L F LK RQFP PAYAITINK + +S +F+ LSRS +RQVK YIE N Sbjct: 164 KAKIISECNRGDSVLIPRIDLAPTETTLNFTLKRRQFPVVPAYAITINKAQGQSFDHVGIQLKTTVFSHGQLYVALSRSRNSRQVKLYIEPN 255
BLAST of ATP-dependent DNA helicase vs. TrEMBL
Match: A0A4Y2PVR7 (ATP-dependent DNA helicase OS=Araneus ventricosus OX=182803 GN=AVEN_105794_1 PE=3 SV=1) HSP 1 Score: 67.781 bits (164), Expect = 1.285e-11 Identity = 30/54 (55.56%), Postives = 42/54 (77.78%), Query Frame = 3 Query: 9 KAKIISTWNHNDIVLILRIDLAPTDTALPFILKCRQFPNFPAYAITINKTRCRS 170 +AKI+ N D+V I RI+LAP+D LPF+LK RQFP+ PAYA+TINK++ ++ Sbjct: 37 RAKIVFECNRGDVVFIPRIELAPSDANLPFVLKRRQFPSIPAYAMTINKSQGQT 90
BLAST of ATP-dependent DNA helicase vs. TrEMBL
Match: A0A226E9L3 (ATP-dependent DNA helicase OS=Folsomia candida OX=158441 GN=Fcan01_11178 PE=3 SV=1) HSP 1 Score: 71.2478 bits (173), Expect = 3.177e-11 Identity = 36/53 (67.92%), Postives = 42/53 (79.25%), Query Frame = 3 Query: 12 AKIISTWNHNDIVLILRIDLAPTDTALPFILKCRQFPNFPAYAITINKTRCRS 170 A+IIS N DIV I RIDLAP+DT LPFIL+ RQFP PAYAITINK++ +S Sbjct: 1449 AEIISECNRGDIVFIPRIDLAPSDTTLPFILRRRQFPITPAYAITINKSQGQS 1501
BLAST of ATP-dependent DNA helicase vs. TrEMBL
Match: A0A4Y2AVB9 (ATP-dependent DNA helicase OS=Araneus ventricosus OX=182803 GN=AVEN_6544_1 PE=3 SV=1) HSP 1 Score: 65.0846 bits (157), Expect = 1.117e-10 Identity = 29/53 (54.72%), Postives = 41/53 (77.36%), Query Frame = 3 Query: 12 AKIISTWNHNDIVLILRIDLAPTDTALPFILKCRQFPNFPAYAITINKTRCRS 170 AKI+S N + +V + RI+LAP+D LPF+LK RQFP PAYA+TINK++ ++ Sbjct: 38 AKIVSECNPSGVVFLTRIELAPSDVTLPFVLKRRQFPLIPAYAMTINKSQGQT 90
BLAST of ATP-dependent DNA helicase vs. TrEMBL
Match: A0A4Y2HS16 (Uncharacterized protein OS=Araneus ventricosus OX=182803 GN=AVEN_150011_1 PE=4 SV=1) HSP 1 Score: 66.2402 bits (160), Expect = 1.719e-10 Identity = 29/48 (60.42%), Postives = 37/48 (77.08%), Query Frame = 3 Query: 12 AKIISTWNHNDIVLILRIDLAPTDTALPFILKCRQFPNFPAYAITINK 155 AKI+S +N +V + RI+LAP+D LPF+LK RQFP PAYA+TINK Sbjct: 30 AKIVSEYNRGGVVFLSRIELAPSDVNLPFVLKRRQFPLIPAYAMTINK 77 The following BLAST results are available for this feature:
BLAST of ATP-dependent DNA helicase vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of ATP-dependent DNA helicase vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of ATP-dependent DNA helicase vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of ATP-dependent DNA helicase vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of ATP-dependent DNA helicase vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of ATP-dependent DNA helicase vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of ATP-dependent DNA helicase vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of ATP-dependent DNA helicase vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 5
BLAST of ATP-dependent DNA helicase vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of ATP-dependent DNA helicase vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of ATP-dependent DNA helicase vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of ATP-dependent DNA helicase vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of ATP-dependent DNA helicase vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of ATP-dependent DNA helicase vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 0
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30007244 ID=SMED30007244|Name=ATP-dependent DNA helicase|organism=Schmidtea mediterranea sexual|type=transcript|length=507bpback to top protein sequence of SMED30007244-orf-1 >SMED30007244-orf-1 ID=SMED30007244-orf-1|Name=SMED30007244-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=103bp LRKAKIISTWNHNDIVLILRIDLAPTDTALPFILKCRQFPNFPAYAITINback to top Annotated Terms
The following terms have been associated with this transcript:
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