TkA07G279000 | RubberDandelionOmics

Gene overview

TkA07G279000

Reference: TK1151 Chr: Chr07 Coordinates: 69762495-69766896 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2518 bp · TkA07G279000|TK1151|cDNA

GAGTTGTAGAGTTGTAGTTGAACCGGTTGGGAAAACCTAAGAGGGCACGATCCACCGGGTCGCGGTAGCCCATAATTTTACGGCTATAGGAGGGTATACGAACAAACTGCGCGAAATCGGAGCGGGAGGGTCCGAAAATGGCAGCTAGTAGTAGCATAGAGGATCTTACGGAGGATCTTCTCAATGTCGAGTTGGAGCTTCAGGATGTTCAAGATGAAATAAAGAACTTGCTTGATAAACAAGAGAAGCTCTACGAGAAA...

CDS

Download CDS FASTA

1188 bp · TkA07G279000|TK1151|CDS

ATGGCAGCTAGTAGTAGCATAGAGGATCTTACGGAGGATCTTCTCAATGTCGAGTTGGAGCTTCAGGATGTTCAAGATGAAATAAAGAACTTGCTTGATAAACAAGAGAAGCTCTACGAGAAACAGTCAGAACTTAGGGCCGTGTTGGAAAGTTATCACGGATTGGAAAAATCTGATAAAGAAGATGCAGCTCCACAACCAGAAAACTGGTCAGGCTCTTTCGAATGGGACAATAGAGCAGATGATATCAGATTTAATAT...

Protein

Download Protein FASTA

395 aa · TkA07G279000|TK1151|PROTEIN

MAASSSIEDLTEDLLNVELELQDVQDEIKNLLDKQEKLYEKQSELRAVLESYHGLEKSDKEDAAPQPENWSGSFEWDNRADDIRFNIFGIPTYRANQREIINAIMSGRDVLVIMAAGGGKSLCYQLPAVLHHGIALVVSPLLSLIQDQVMGLTALGIPASMLTSTTSKEHEKFIYQALEKGEGDLKVLYVTPEKISKSKRFVSKLEKCHHAGRLSLISIDEAHCCSQWGHDFRPDYKNLGILKTQFPNVPVVALTATATK...

Flanking Sequence Download

Sequence orientation and download details

Upstream/downstream are capped at 10000 bp per side. Negative-strand genes are reverse-complemented so the final FASTA follows transcriptional 5′→3′ orientation.

ID Mapping

Input ID	`TkA07G279000`
TK1151 ID	TkA07G279000
OH-1004 ID	LXL04_029141
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	100.000
Protein coverage (%)	TK1151 83.797 / OH-1004 46.229 Coverage and evidence Coverage is the aligned span of the best-scoring HSP divided by representative protein length. A homolog match does not establish functional validation.
Source version	TK1151 / GWHBCHF00000000

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SNP / Indel variants and carrier samplesCRA009020 · TK1151

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Basic Information and Functional Annotation

Gene ID TkA07G279000

Location Chr07:69762495-69766896 (+)

Description Similar to RECQL2: ATP-dependent DNA helicase Q-like 2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g31360`	3'-5' DNA helicase that may play a role in the repair of DNA.	AtRECQ2, a RecQ helicase homologue from Arabidopsis thaliana, is able to disrupt various recombinogenic DNA structures in vitro.2008 · DOI: 10.1111/j.0960-7412.2008.03511.x Biochemical characterization of AtRECQ3 reveals significant differences relative to other RecQ helicases.2009 · DOI: 10.1104/pp.109.144709 Fork sensing and strand switching control antagonistic activities of RecQ helicases.2013 · DOI: 10.1038/ncomms3024

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_029141 · GCA_047496595.1_OSU_TarKok_2.0. These OH1004 annotations are retrieved through ID mapping; the Arabidopsis/rice table below uses protein alignments from the query reference.

GO annotations (OH1004 source)

GO:0000724 double-strand break repair via homologous recombination Biological Process

GO:0006260 DNA replication Biological Process

GO:0006281 DNA repair Biological Process

GO:0006310 DNA recombination Biological Process

GO:0031297 replication fork processing Biological Process

GO:0005634 nucleus Cellular Component

GO:0005654 nucleoplasm Cellular Component

GO:0005694 chromosome Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0016020 membrane Cellular Component

GO:0016592 mediator complex Cellular Component

GO:0003677 DNA binding Molecular Function

KEGG gene cross-reference

ath:AT1G31360

hsa:5965

mmu:19691

pon:100171554

rno:312824

These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.

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Gene expression

View expression in different studies, tissues and treatments. Results are presented separately by study and measurement unit.

View expression for this gene

Data sources and gene correspondence

Expression data come from public transcriptome studies. Reference genomes, sample metadata and measurement units are shown with the results. Ambiguous cross-reference correspondences do not select an expression record automatically; missing values do not mean zero expression.

Subcellular Localization Top 5

Computational predictions or homology annotations below do not replace localization experiments.

Nucleus0.469

Rank 1 · TkA07G279000 · TK1151

Cytoplasm0.454

Rank 2 · TkA07G279000 · TK1151

Mitochondrion0.129

Rank 3 · TkA07G279000 · TK1151

Endoplasmic reticulum0.071

Rank 4 · TkA07G279000 · TK1151

Cell membrane0.062

Rank 5 · TkA07G279000 · TK1151

LocPro · Direct prediction · Computational prediction, not experimental localization

Open Subcellular Module

Predicted Functional Domains

Domain results are from Pfam-A/HMMER; positions are amino-acid coordinates on the protein sequence.

PF04136COG3_N4-60 aa

PF06156YabA6-62 aa

PF25762HAUS16-64 aa

PF14712Snapin_Pallidin10-57 aa

PF14257DUF434911-48 aa

PF04851ResIII33-59 aa

PF04851ResIII93-258 aa

PF00270DEAD95-263 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA07G279000	`PF04136`	COG3_N	4	60	0.0049	17.5
TkA07G279000	`PF06156`	YabA	6	62	0.073	14.4
TkA07G279000	`PF25762`	HAUS1	6	64	0.077	13.5
TkA07G279000	`PF14712`	Snapin_Pallidin	10	57	7.8	7.7
TkA07G279000	`PF14257`	DUF4349	11	48	0.044	13.9
TkA07G279000	`PF04851`	ResIII	33	59	1.3e-05	25.9
TkA07G279000	`PF04851`	ResIII	93	258	1.3e-05	25.9
TkA07G279000	`PF00270`	DEAD	95	263	1.2e-26	94.2
TkA07G279000	`PF14712`	Snapin_Pallidin	136	153	7.8	7.7
TkA07G279000	`PF08893`	DUF1839	158	235	0.14	12.7
TkA07G279000	`PF00270`	DEAD	293	314	1.2e-26	94.2

Arabidopsis / Rice Protein Homology

Only Arabidopsis and rice are shown. Swiss-Prot entries are reviewed; TrEMBL entries are supplementary sequence candidates. Similarity is not experimental validation.

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Protein	Organism	Description	Identity	Database	Confidence
`Q9FT73`	Arabidopsis thaliana	sp\|Q9FT73\|RECQ2_ARATH ATP-dependent DNA helicase Q-like 2	71.700%	Swiss-Prot	High

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