LXL04_018024 | RubberDandelionOmics

Gene overview

LXL04_018024

Reference: OH-1004 Chr: Chr04 Coordinates: 5212651-5218110 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2346 bp · LXL04_018024|LXL04_018024|OH1004|cDNA

ATGAGACCGGAGAATCTTCTCCTCCGCCCCACCCACACCCAATACTGCACTCTCGGCTGTCCGATCCTCGACGCCTTCCTCGGCGGCGGAATCCCTTGCAACTCCATCACCGAACTCGTCGCCGAAAGCGGTTCAGGTAAAACCCAACTCTCCCTCCAACTCCTCATCACCGCTCAGCTTCCTCTCCACCTCAAAGGCCTTTCCGCCTCCTCCCTCTATCTCTACTCCGAGTTCCCATTTCCCAACCGCCGTCTAGACCA...

CDS

Download CDS FASTA

2346 bp · LXL04_018024|LXL04_018024|OH1004|CDS

ATGAGACCGGAGAATCTTCTCCTCCGCCCCACCCACACCCAATACTGCACTCTCGGCTGTCCGATCCTCGACGCCTTCCTCGGCGGCGGAATCCCTTGCAACTCCATCACCGAACTCGTCGCCGAAAGCGGTTCAGGTAAAACCCAACTCTCCCTCCAACTCCTCATCACCGCTCAGCTTCCTCTCCACCTCAAAGGCCTTTCCGCCTCCTCCCTCTATCTCTACTCCGAGTTCCCATTTCCCAACCGCCGTCTAGACCA...

Protein

Download Protein FASTA

781 aa · LXL04_018024|LXL04_018024|OH1004|PROTEIN

MRPENLLLRPTHTQYCTLGCPILDAFLGGGIPCNSITELVAESGSGKTQLSLQLLITAQLPLHLKGLSASSLYLYSEFPFPNRRLDQLIESFRSSHPILFASSRDPRDYIFTRNCQTAQDLLDVLLLLESRLEKPKETRLDIKLIVIDSIAALFRSDFDNNAADLMRRSSLFFKISAILKSHARRRGIAIVITNQVVDSMDDNHGSGNVRIGNLESMYTSGRRVLPALGLSWANCVNSRLFMSRHDIIEGVENGVPDSDY...

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_018024`
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_018024

Location Chr04:5212651-5218110 (+)

Description Similar to XRCC3: DNA repair protein XRCC3 homolog

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g57450`	Plays essential roles in DNA damage repair in both somatic and meiotic cells.	The Arabidopsis homologue of Xrcc3 plays an essential role in meiosis.2004 · DOI: 10.1038/sj.emboj.7600055

Rice

No hit for this species in the current source table.

Functional annotation source

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Functional annotation source: OH1004 · LXL04_018024 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000722 telomere maintenance via recombination Biological Process

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

GO:0006281 DNA repair Biological Process

GO:0006302 double-strand break repair Biological Process

GO:0006310 DNA recombination Biological Process

GO:0006508 proteolysis Biological Process

GO:0006974 DNA damage response Biological Process

GO:0010824 regulation of centrosome duplication Biological Process

GO:0015074 DNA integration Biological Process

GO:0031297 replication fork processing Biological Process

GO:0036297 interstrand cross-link repair Biological Process

GO:0045003 double-strand break repair via synthesis-dependent strand annealing Biological Process

KEGG gene cross-reference

ath:AT5G57450

bta:768244

hsa:7517

mmu:74335

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.

Cytoplasm0.589

Rank 1 · LXL04_018024 · OH-1004

Nucleus0.422

Rank 2 · LXL04_018024 · OH-1004

Mitochondrion0.059

Rank 3 · LXL04_018024 · OH-1004

Peroxisome0.057

Rank 4 · LXL04_018024 · OH-1004

Cell membrane0.045

Rank 5 · LXL04_018024 · 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.

PF08423.18Rad5117-202 aa

PF14223.15Retrotran_gag_2296-454 aa

PF22936.2Pol_BBD563-643 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_018024	`PF08423.18`	Rad51	17	202	2.3e-23	83.4
LXL04_018024	`PF14223.15`	Retrotran_gag_2	296	454	1.7e-30	106.7
LXL04_018024	`PF22936.2`	Pol_BBD	563	643	2.6e-20	73.2

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
`Q9FKM5`	Arabidopsis thaliana	DNA repair protein XRCC3 homolog	51.042%	Swiss-Prot	weak database homology

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