LXL04_017108 | RubberDandelionOmics

Gene overview

LXL04_017108

Reference: OH-1004 Chr: Chr03 Coordinates: 141315546-141317113 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1036 bp · LXL04_017108|LXL04_017108|OH1004|cDNA

TTGATATTTGGTTTGAATTCATGCAAGGACCATACAGTTAAGGTCAGAAATTCTCCGACTTTTGAAAAATACTTCATGGGATAATAAGGAAGATATTCGTAGCATTTCAATGATCTTAATGGATGAGAAGGGTTCTAAGATAGAATGTAATGTGAAAAAACTATTTTACATTAAATATTTGGAACTATTTGAAGAATATGATGTGGTTTATATTCGAAACTCTACTCTTGGCACACATTTAGGCAATATGAAATATATTG...

CDS

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975 bp · LXL04_017108|LXL04_017108|OH1004|CDS

TTGAAAAATACTTCATGGGATAATAAGGAAGATATTCGTAGCATTTCAATGATCTTAATGGATGAGAAGGGTTCTAAGATAGAATGTAATGTGAAAAAACTATTTTACATTAAATATTTGGAACTATTTGAAGAATATGATGTGGTTTATATTCGAAACTCTACTCTTGGCACACATTTAGGCAATATGAAATATATTGATCATGTTAAACAAATGCATTTCAAGATTACCGTTACCAAGTGTAACGATTTTGATGGTCC...

Protein

Download Protein FASTA

324 aa · LXL04_017108|LXL04_017108|OH1004|PROTEIN

MKNTSWDNKEDIRSISMILMDEKGSKIECNVKKLFYIKYLELFEEYDVVYIRNSTLGTHLGNMKYIDHVKQMHFKITVTKCNDFDGPTHGFSFANFQSILDNSLPFNLTVDVIGEVINIPPLDKLKGQNHDTLQQNVDLKDLSGITIIVTFWGNAAQELMDYVANHSDSKCLIIIIQFGKLRIFNGVTYVNNSMVGTKIFCNSDIEEINSFKKKPTNLFVYRLYSLKVFDTSSSSRTIGSLTFYSLRDEFMVKNPLYNIS...

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_017108`
TK1151 ID	TkA02G074620
OH-1004 ID	LXL04_017108
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	96.000
Protein coverage (%)	TK1151 82.073 / OH-1004 92.901 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_017108

Location Chr03:141315546-141317113 (-)

Description Protein of unknown function

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
`At4g19130`	Component of the replication protein A complex (RPA) required for DNA recombination, repair and replication.	No verified direct reference in this release
`At5g08020`	Component of the replication protein A complex (RPA) required for DNA recombination, repair and replication.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_017108 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

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: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:0010224 response to UV-B Biological Process

GO:0048232 male gamete generation Biological Process

GO:0051026 chiasma assembly Biological Process

KEGG gene cross-reference

ath:AT2G06510

ath:AT4G19130

ath:AT5G08020

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.

Nucleus0.858

Rank 1 · LXL04_017108 · OH-1004

Cytoplasm0.214

Rank 2 · LXL04_017108 · OH-1004

Mitochondrion0.026

Rank 3 · LXL04_017108 · OH-1004

Cell membrane0.023

Rank 4 · LXL04_017108 · OH-1004

Endoplasmic reticulum0.021

Rank 5 · LXL04_017108 · 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.

PF02721.22DUF22311-101 aa

PF16900.12REPA_OB_2106-188 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_017108	`PF02721.22`	DUF223	11	101	2.1e-09	38.3
LXL04_017108	`PF16900.12`	REPA_OB_2	106	188	1.4e-07	32.1

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	24.150%	Swiss-Prot	weak database homology
`F4JSG3`	Arabidopsis thaliana	Replication protein A 70 kDa DNA-binding subunit E	29.787%	Swiss-Prot	weak database homology
`Q9SD82`	Arabidopsis thaliana	Replication protein A 70 kDa DNA-binding subunit B	24.675%	Swiss-Prot	weak database homology

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