LXL04_031465 | RubberDandelionOmics

Gene overview

LXL04_031465

Reference: OH-1004 Chr: Chr07 Coordinates: 6302146-6304990 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1821 bp · LXL04_031465|LXL04_031465|OH1004|cDNA

ATGGCGAAATCCGTTAGCCCAGATGCGATTTCGGTGATACTGTCGAACCCTACCCCAGATTCATCAACTGATCTTCCAGAAATTGTTGTACAAGTACTTGATATGAAGGCTGCTGGTAACAGATACACGTTTAATGTGAGTGATGGCAAGCTGAAGCTCAAGACTATGTTACAATCTAGTTTGTCATCTGAAGTTATCAACGGAAATATCCAAAACCTGGGTCTTATCCGTATTAACGACTACACTCTCAACGACATCCC...

CDS

Download CDS FASTA

1821 bp · LXL04_031465|LXL04_031465|OH1004|CDS

ATGGCGAAATCCGTTAGCCCAGATGCGATTTCGGTGATACTGTCGAACCCTACCCCAGATTCATCAACTGATCTTCCAGAAATTGTTGTACAAGTACTTGATATGAAGGCTGCTGGTAACAGATACACGTTTAATGTGAGTGATGGCAAGCTGAAGCTCAAGACTATGTTACAATCTAGTTTGTCATCTGAAGTTATCAACGGAAATATCCAAAACCTGGGTCTTATCCGTATTAACGACTACACTCTCAACGACATCCC...

Protein

Download Protein FASTA

606 aa · LXL04_031465|LXL04_031465|OH1004|PROTEIN

MAKSVSPDAISVILSNPTPDSSTDLPEIVVQVLDMKAAGNRYTFNVSDGKLKLKTMLQSSLSSEVINGNIQNLGLIRINDYTLNDIPNKNEKYLIVTKCEAVSPPLEAEFKVFPPSTEVKIEGSGNMMKPKQEVITKSAAQIVNEQNKNMAPSARMAMTRRVHPLASLNPYQGNWTIKVRVTAKGTMRTYKNAKGEGCVFNVELTDEDGTQIQATMFSEAARKFFDIFQMGKVYYISKGTLKVANKQYKTVENDYEMTLN...

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	`LXL04_031465`
TK1151 ID	TkA08G108110
OH-1004 ID	LXL04_031465
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.000
Protein coverage (%)	TK1151 100.000 / OH-1004 100.000 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	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_031465

Location Chr07:6302146-6304990 (+)

Description Similar to RPA1B: Replication protein A 70 kDa DNA-binding subunit B

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g08020`	Component of the replication protein A complex (RPA) required for DNA recombination, repair and replication.	No verified direct reference in this release
`At5g61000`	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
`Os03g0214100`	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

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_031465 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000723 telomere maintenance Biological Process

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

GO:0006260 DNA replication Biological Process

GO:0006281 DNA repair Biological Process

GO:0006289 nucleotide-excision repair Biological Process

GO:0006312 mitotic recombination Biological Process

GO:0007004 telomere maintenance via telomerase Biological Process

GO:0007131 reciprocal meiotic recombination Biological Process

GO:0007141 male meiosis I Biological Process

GO:0009555 pollen development Biological Process

GO:0010224 response to UV-B Biological Process

GO:0033260 nuclear DNA replication Biological Process

KEGG gene cross-reference

ath:AT2G06510

ath:AT5G08020

ath:AT5G61000

dosa:Os03g0214100

spo:2541158

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.

Nucleus0.937

Rank 1 · LXL04_031465 · OH-1004

Cytoplasm0.198

Rank 2 · LXL04_031465 · OH-1004

Mitochondrion0.027

Rank 3 · LXL04_031465 · OH-1004

Cell membrane0.019

Rank 4 · LXL04_031465 · OH-1004

Endoplasmic reticulum0.010

Rank 5 · LXL04_031465 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

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Predicted Functional Domains

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

PF04057.19Rep-A_N5-103 aa

PF02721.22DUF223167-272 aa

PF01336.32tRNA_anti-codon176-262 aa

PF16900.12REPA_OB_2292-389 aa

PF08646.17Rep_fac-A_C452-597 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_031465	`PF04057.19`	Rep-A_N	5	103	1.7e-23	83.2
LXL04_031465	`PF02721.22`	DUF223	167	272	1.7e-10	41.8
LXL04_031465	`PF01336.32`	tRNA_anti-codon	176	262	4.9e-09	36.7
LXL04_031465	`PF16900.12`	REPA_OB_2	292	389	2.6e-24	85.7
LXL04_031465	`PF08646.17`	Rep_fac-A_C	452	597	5.6e-43	146.9

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
`Q9SD82`	Arabidopsis thaliana	Replication protein A 70 kDa DNA-binding subunit B	67.875%	Swiss-Prot	strong database homology
`Q9FME0`	Arabidopsis thaliana	Replication protein A 70 kDa DNA-binding subunit D	66.613%	Swiss-Prot	strong database homology
`Q9SKI4`	Arabidopsis thaliana	Replication protein A 70 kDa DNA-binding subunit A	31.346%	Swiss-Prot	moderate database homology
`Q10Q08`	Oryza sativa subsp. japonica	Replication protein A 70 kDa DNA-binding subunit B	62.300%	Swiss-Prot	strong database homology

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