LXL04_008510 | RubberDandelionOmics

Gene overview

LXL04_008510

Reference: OH-1004 Chr: Chr02 Coordinates: 101572442-101576723 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1125 bp · LXL04_008510|LXL04_008510|OH1004|cDNA

ATGGAAAATTGGAAACTAGGCTTCTCATGTAACTTGAGTTCGTTTAATTTTGTTGATCTTGCAGACATCATTGTGAGTGGTGTTGGGGATGAGTGTGCTATTGCAAGTCACGAAGTTGGTGCAAGTAGGGGTCTTGACATGCCTGATTCTGGAAGTGGTAAGGGCACAGGGCGGAATCTCCCATCATGGATGAGCTCAAGGGACACAGATATAAAAGCCGAGAGTAACAAATCATCTGATGACGATAAAGGTAAACGACA...

CDS

Download CDS FASTA

1125 bp · LXL04_008510|LXL04_008510|OH1004|CDS

ATGGAAAATTGGAAACTAGGCTTCTCATGTAACTTGAGTTCGTTTAATTTTGTTGATCTTGCAGACATCATTGTGAGTGGTGTTGGGGATGAGTGTGCTATTGCAAGTCACGAAGTTGGTGCAAGTAGGGGTCTTGACATGCCTGATTCTGGAAGTGGTAAGGGCACAGGGCGGAATCTCCCATCATGGATGAGCTCAAGGGACACAGATATAAAAGCCGAGAGTAACAAATCATCTGATGACGATAAAGGTAAACGACA...

Protein

Download Protein FASTA

374 aa · LXL04_008510|LXL04_008510|OH1004|PROTEIN

MENWKLGFSCNLSSFNFVDLADIIVSGVGDECAIASHEVGASRGLDMPDSGSGKGTGRNLPSWMSSRDTDIKAESNKSSDDDKGKRQGKPHANQATTSSESSPGANKSSKLLEGVVFVLSGFVNPERSTLRSQALEMGAKYEADWNNNCTLLVCAFPNTPKFRQVEADNGTIISKDWITECYNKKQLIGIEPYLLHAGKPWRHQSSSSSKNKKQTAKNEFSTSEVKKWAIDDMEMTISWLDSQDEKPDPSEIKKIAAEGI...

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_008510`
TK1151 ID	TkA03G363880
OH-1004 ID	LXL04_008510
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	87.200
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

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_008510

Location Chr02:101572442-101576723 (+)

Description Similar to XRCC1: DNA-repair protein XRCC1

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g80420`	Corrects defective DNA strand-break repair and sister chromatid exchange following treatment with ionizing radiation and alkylating agents (By similarity).	The DNA repair protein XRCC1 functions in the plant DNA demethylation pathway by stimulating cytosine methylation (5-meC) excision, gap tailoring, and DNA ligation.2013 · DOI: 10.1074/jbc.m112.427617

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_008510 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000012 single strand break repair Biological Process

GO:0001666 response to hypoxia Biological Process

GO:0006281 DNA repair Biological Process

GO:0006282 regulation of DNA repair Biological Process

GO:0006284 base-excision repair Biological Process

GO:0006302 double-strand break repair Biological Process

GO:0006303 double-strand break repair via nonhomologous end joining Biological Process

GO:0006974 DNA damage response Biological Process

GO:0009410 response to xenobiotic stimulus Biological Process

GO:0010836 negative regulation of protein ADP-ribosylation Biological Process

GO:0033194 response to hydroperoxide Biological Process

GO:0061819 telomeric DNA-containing double minutes formation Biological Process

KEGG gene cross-reference

ath:AT1G80420

cge:100689414

hsa:7515

mmu:22594

rno:84495

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.

Nucleus0.927

Rank 1 · LXL04_008510 · OH-1004

Cytoplasm0.137

Rank 2 · LXL04_008510 · OH-1004

Cell membrane0.032

Rank 3 · LXL04_008510 · OH-1004

Mitochondrion0.019

Rank 4 · LXL04_008510 · OH-1004

Endoplasmic reticulum0.018

Rank 5 · LXL04_008510 · OH-1004

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.

PF00533.34BRCT108-182 aa

PF16589.13BRCT_2110-193 aa

PF12738.14PTCB-BRCT116-166 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_008510	`PF00533.34`	BRCT	108	182	5.3e-12	46.5
LXL04_008510	`PF16589.13`	BRCT_2	110	193	6e-06	27.2
LXL04_008510	`PF12738.14`	PTCB-BRCT	116	166	1.6e-08	35.2

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q24JK4`	Arabidopsis thaliana	DNA-repair protein XRCC1	49.157%	Swiss-Prot	moderate database homology

JBrowse

View in Genome Browser

Gene Card