LXL04_030169 | RubberDandelionOmics

Gene overview

LXL04_030169

Reference: OH-1004 Chr: Chr06 Coordinates: 109910937-109913531 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1707 bp · LXL04_030169|LXL04_030169|OH1004|cDNA

ATGAACTCTAAGCAAATATCAATGGTTGATGAACTAAATTCAAGCAAGGATCATACAGTCAAGGTCAGAATTCTCCGAGTGTGGAAAAATTATTCATGGGATAATAAACAAGAAATTCGTAGCATTTCAATGATTTTAATGGATCAGAAGGGTTCTAAGATAGAATGTAATGTAAACAAATCATATTATACTCCCTATTTGAAACTATTTGAAGAATATGTTGTGGTGTATATTCGAAACTCTACGGTTGGCAAACATTT...

CDS

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1488 bp · LXL04_030169|LXL04_030169|OH1004|CDS

ATGAACTCTAAGCAAATATCAATGGTTGATGAACTAAATTCAAGCAAGGATCATACAGTCAAGGTCAGAATTCTCCGAGTGTGGAAAAATTATTCATGGGATAATAAACAAGAAATTCGTAGCATTTCAATGATTTTAATGGATCAGAAGGGTTCTAAGATAGAATGTAATGTAAACAAATCATATTATACTCCCTATTTGAAACTATTTGAAGAATATGTTGTGGTGTATATTCGAAACTCTACGGTTGGCAAACATTT...

Protein

Download Protein FASTA

495 aa · LXL04_030169|LXL04_030169|OH1004|PROTEIN

MNSKQISMVDELNSSKDHTVKVRILRVWKNYSWDNKQEIRSISMILMDQKGSKIECNVNKSYYTPYLKLFEEYVVVYIRNSTVGKHLGKIKYVDHEKQMYFKQDTTVTKCNDFDDPTYGFRFAKFQEILDNSHPCDSSMDVIGKVVDMEPLEKNKSFNKDTLQQNLYLEDLSGIRINVTLWGSYAQELVDYVANNQESKCLILIIQFAMRKTFNGATYVNNSMVGTKLFFNSDIEEVNTFKKELLSLDANHTSSSARTIG...

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_030169`
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_030169

Location Chr06:109910937-109913531 (-)

Description Similar to RPA1A: Replication protein A 70 kDa DNA-binding subunit A

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

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

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

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Functional annotation source: OH1004 · LXL04_030169 · 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:0006261 DNA-templated DNA replication Biological Process

GO:0006281 DNA repair Biological Process

GO:0006284 base-excision repair Biological Process

GO:0006289 nucleotide-excision repair Biological Process

GO:0006298 mismatch repair Biological Process

GO:0006310 DNA recombination Biological Process

GO:0006974 DNA damage response Biological Process

GO:0007004 telomere maintenance via telomerase Biological Process

GO:0007131 reciprocal meiotic recombination Biological Process

KEGG gene cross-reference

ath:AT2G06510

ath:AT5G08020

dosa:Os02g0776800

hsa:6117

pon:100173266

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.

Nucleus0.948

Rank 1 · LXL04_030169 · OH-1004

Cytoplasm0.131

Rank 2 · LXL04_030169 · OH-1004

Cell membrane0.019

Rank 3 · LXL04_030169 · OH-1004

Mitochondrion0.017

Rank 4 · LXL04_030169 · OH-1004

Endoplasmic reticulum0.010

Rank 5 · LXL04_030169 · 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.

PF02721.22DUF22319-130 aa

PF16900.12REPA_OB_2135-193 aa

PF08646.17Rep_fac-A_C295-425 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_030169	`PF02721.22`	DUF223	19	130	1.9e-19	70.7
LXL04_030169	`PF16900.12`	REPA_OB_2	135	193	2.5e-07	31.3
LXL04_030169	`PF08646.17`	Rep_fac-A_C	295	425	8.5e-09	36.1

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
`Q9SKI4`	Arabidopsis thaliana	Replication protein A 70 kDa DNA-binding subunit A	22.831%	Swiss-Prot	weak database homology
`Q9SD82`	Arabidopsis thaliana	Replication protein A 70 kDa DNA-binding subunit B	21.769%	Swiss-Prot	weak database homology
`Q6YZ49`	Oryza sativa subsp. japonica	Replication protein A 70 kDa DNA-binding subunit A	21.652%	Swiss-Prot	weak database homology

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