LXL04_008398 | RubberDandelionOmics

Gene overview

LXL04_008398

Reference: OH-1004 Chr: Chr02 Coordinates: 98515658-98528956 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

10476 bp · LXL04_008398|LXL04_008398|OH1004|cDNA

ATGGCTCCAAAATTAGCTAACGCTACCACGTCTACTAAAGAAGAAAGTTTCATTCCAGTCACATCGTCTCTTTATGTAGTTAAAGATAGCAATCATGCGATTAGTTTAGATCCAAAGGACTATGCGGAAACCGTCAGAGTGGTTATCGAATTCTTGAACGTTTTCCCCCTTCACGAAGCTTTAACTGCGGTTCCAAAAACTCCTATTTCGCAGTTCAAACAAGAAATCGGGTATATTCATCCACAAAAAGCAAAGAATAA...

CDS

Download CDS FASTA

10476 bp · LXL04_008398|LXL04_008398|OH1004|CDS

ATGGCTCCAAAATTAGCTAACGCTACCACGTCTACTAAAGAAGAAAGTTTCATTCCAGTCACATCGTCTCTTTATGTAGTTAAAGATAGCAATCATGCGATTAGTTTAGATCCAAAGGACTATGCGGAAACCGTCAGAGTGGTTATCGAATTCTTGAACGTTTTCCCCCTTCACGAAGCTTTAACTGCGGTTCCAAAAACTCCTATTTCGCAGTTCAAACAAGAAATCGGGTATATTCATCCACAAAAAGCAAAGAATAA...

Protein

Download Protein FASTA

3491 aa · LXL04_008398|LXL04_008398|OH1004|PROTEIN

MAPKLANATTSTKEESFIPVTSSLYVVKDSNHAISLDPKDYAETVRVVIEFLNVFPLHEALTAVPKTPISQFKQEIGYIHPQKAKNKSDLVKSGCPAVWQVLIHLLLRSLSGKSGGTDSLNLLWTDFINSIWSNRPNAVDVPQLLWDEFILYTSRRKNQEMPLERFWALTLEAVYKEHKINPTPDDSSLVCTFTNLKGYKCSDQTRFGTPKRLPKHMLDMLSPTSPYMNYHLAATEVTARLSPTPDVDSAKKGDETSAQE...

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_008398`
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_008398

Location Chr02:98515658-98528956 (-)

Description Similar to pif1: ATP-dependent DNA helicase PIF1

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

Rice

No hit for this species in the current source table.

Functional annotation source

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Functional annotation source: OH1004 · LXL04_008398 · 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:0001117 protein-DNA-RNA complex disassembly Biological Process

GO:0006260 DNA replication Biological Process

GO:0006281 DNA repair Biological Process

GO:0006289 nucleotide-excision repair Biological Process

GO:0006310 DNA recombination Biological Process

GO:0007004 telomere maintenance via telomerase Biological Process

GO:0010224 response to UV-B Biological Process

GO:0032211 negative regulation of telomere maintenance via telomerase Biological Process

GO:0051321 meiotic cell cycle Biological Process

GO:0000781 chromosome, telomeric region Cellular Component

KEGG gene cross-reference

ath:AT5G08020

cje:Cj0945c

mmu:208084

rno:367645

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.

Nucleus0.911

Rank 1 · LXL04_008398 · OH-1004

Cytoplasm0.167

Rank 2 · LXL04_008398 · OH-1004

Mitochondrion0.036

Rank 3 · LXL04_008398 · OH-1004

Cell membrane0.018

Rank 4 · LXL04_008398 · OH-1004

Endoplasmic reticulum0.009

Rank 5 · LXL04_008398 · 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.

PF14214.12Helitron_like_N1686-1870 aa

PF05970.21PIF12338-2560 aa

PF21530.4Pif1_2B_dom2662-2707 aa

PF02721.22DUF2232869-2970 aa

PF08646.17Rep_fac-A_C3144-3245 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_008398	`PF14214.12`	Helitron_like_N	1686	1870	2.3e-57	195.0
LXL04_008398	`PF05970.21`	PIF1	2338	2560	5.1e-82	275.5
LXL04_008398	`PF21530.4`	Pif1_2B_dom	2662	2707	1.1e-21	76.9
LXL04_008398	`PF02721.22`	DUF223	2869	2970	7.4e-10	39.8
LXL04_008398	`PF08646.17`	Rep_fac-A_C	3144	3245	1.9e-09	38.2

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
`Q9SD82`	Arabidopsis thaliana	Replication protein A 70 kDa DNA-binding subunit B	24.107%	Swiss-Prot	weak database homology

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