TkA03G084790 | RubberDandelionOmics

Gene overview

TkA03G084790

Reference: TK1151 Chr: Chr03 Coordinates: 21575860-21577384 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1271 bp · TkA03G084790|TK1151|cDNA

TTCCCCCGCATTTATCTTCACCCTCTAGGGTTTTCAAAACCCTGAGTCACTGCAATCACGCTTCAGGCGATCAAAAACTATGGCGGTCAATCTTACTGCTGATGCAATATCAATGATAACGACTGGGGAATGGCAAACGGTGGATCTGAAACCGGTGCTTCAGGTGATCGCTCTTCGGACCGTTCAAACGCAAACTTTGACAGAGGGTGGTGGAGAAAACAGGGAGATGCACAGGGTATTGCTATCTGACGGTTCCTTTC...

CDS

Download CDS FASTA

774 bp · TkA03G084790|TK1151|CDS

ATGGCGGTCAATCTTACTGCTGATGCAATATCAATGATAACGACTGGGGAATGGCAAACGGTGGATCTGAAACCGGTGCTTCAGGTGATCGCTCTTCGGACCGTTCAAACGCAAACTTTGACAGAGGGTGGTGGAGAAAACAGGGAGATGCACAGGGTATTGCTATCTGACGGTTCCTTTCATCGGCAGGGAGTCCTCTCTACTCATCGCAACGAGTTGGTTACCTCTCAACAGTTGCAGAGGGGTTCCATCGTTCAATT...

Protein

Download Protein FASTA

257 aa · TkA03G084790|TK1151|PROTEIN

MAVNLTADAISMITTGEWQTVDLKPVLQVIALRTVQTQTLTEGGGENREMHRVLLSDGSFHRQGVLSTHRNELVTSQQLQRGSIVQLTEFVCITIRERLIIKIIDLNVILTQCDIIGNTRPFQLEPPGNDQFIWKTTSQIKDEELGTSGNPDYITVNATIWYIKRDKFWYTTCPIMLGDRKCSKKVMKNGDGRWRCKKCDQIVDECDYRYELHLQIRDHTGVAWITAYEETAEEIMGVSAKDLYLLKQEEEGFTSIL

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	`TkA03G084790`
TK1151 ID	TkA03G084790
OH-1004 ID	LXL04_029062
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	97.600
Protein coverage (%)	TK1151 98.054 / OH-1004 79.747 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

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · TK1151

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID TkA03G084790

Location Chr03:21575860-21577384 (+)

Description Similar to RPA1E: Replication protein A 70 kDa DNA-binding subunit E

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g19130`	Component of the replication protein A complex (RPA) required for DNA recombination, repair and replication.	No verified direct reference in this release
`At5g45400`	Component of the replication protein A complex (RPA) required for DNA recombination, repair and replication.	No verified direct reference in this release
`At2g06510`	Component of the replication protein A complex (RPA) required for DNA recombination, repair and replication.	Replication protein A (AtRPA1a) is required for class I crossover formation but is dispensable for meiotic DNA break repair.2009 · DOI: 10.1038/emboj.2008.295 Arabidopsis replication protein A 70a is required for DNA damage response and telomere length homeostasis.2009 · DOI: 10.1093/pcp/pcp140

Rice

Reference gene ID	Possible function	Papers / DOI
`Os02g0776800`	Component of the replication protein A complex (RPA) required for DNA recombination, repair and replication.	Two types of replication protein A in seed plants.2005 · DOI: 10.1111/j.1742-4658.2005.04719.x Replication protein A (RPA1a) is required for meiotic and somatic DNA repair but is dispensable for DNA replication and homologous recombination in rice.2009 · DOI: 10.1104/pp.109.142877

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_029062 · 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:0006289 nucleotide-excision repair Biological Process

GO:0007004 telomere maintenance via telomerase Biological Process

GO:0007131 reciprocal meiotic recombination Biological Process

GO:0007140 male meiotic nuclear division Biological Process

GO:0007141 male meiosis I Biological Process

GO:0009555 pollen development Biological Process

GO:0048232 male gamete generation Biological Process

GO:0051026 chiasma assembly Biological Process

GO:0051321 meiotic cell cycle Biological Process

GO:0000785 chromatin Cellular Component

KEGG gene cross-reference

ath:AT2G06510

ath:AT4G19130

ath:AT5G45400

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

Open Annotation Module

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.

Nucleus0.866

Rank 1 · TkA03G084790 · TK1151

Cytoplasm0.237

Rank 2 · TkA03G084790 · TK1151

Mitochondrion0.030

Rank 3 · TkA03G084790 · TK1151

Cell membrane0.026

Rank 4 · TkA03G084790 · TK1151

Endoplasmic reticulum0.016

Rank 5 · TkA03G084790 · 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.

PF04057Rep-A_N5-109 aa

PF17659RADX49-109 aa

PF17244CDC24_OB367-95 aa

PF07073ROF69-95 aa

PF08646Rep_fac-A_C153-251 aa

PF17244CDC24_OB3181-250 aa

PF07073ROF195-234 aa

PF17659RADX223-249 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA03G084790	`PF04057`	Rep-A_N	5	109	4.5e-20	72.3
TkA03G084790	`PF17659`	RADX	49	109	0.12	13.3
TkA03G084790	`PF17244`	CDC24_OB3	67	95	0.00048	20.7
TkA03G084790	`PF07073`	ROF	69	95	0.53	11.2
TkA03G084790	`PF08646`	Rep_fac-A_C	153	251	4.3e-34	118.1
TkA03G084790	`PF17244`	CDC24_OB3	181	250	0.00048	20.7
TkA03G084790	`PF07073`	ROF	195	234	0.53	11.2
TkA03G084790	`PF17659`	RADX	223	249	0.12	13.3

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`F4JSG3`	Arabidopsis thaliana	sp\|F4JSG3\|RFA1E_ARATH Replication protein A 70 kDa DNA-binding subunit E	64.800%	Swiss-Prot	Low
`Q9FHJ6`	Arabidopsis thaliana	sp\|Q9FHJ6\|RFA1C_ARATH Replication protein A 70 kDa DNA-binding subunit C	60.800%	Swiss-Prot	Low
`Q9SKI4`	Arabidopsis thaliana	sp\|Q9SKI4\|RFA1A_ARATH Replication protein A 70 kDa DNA-binding subunit A	57.800%	Swiss-Prot	Low
`Q6YZ49`	Oryza sativa subsp. japonica	sp\|Q6YZ49\|RFA1A_ORYSJ Replication protein A 70 kDa DNA-binding subunit A	50.000%	Swiss-Prot	Low

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