LXL04_038628 | RubberDandelionOmics

Gene overview

LXL04_038628

Reference: OH-1004 Chr: Chr09 Coordinates: 46720997-46722535 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

639 bp · LXL04_038628|LXL04_038628|OH1004|cDNA

ATGGTAGCAGCTGTTTCATCAATGGAATCCAGTGATGCTTATACGTTGTTGAAAGCATTGTTGGCCATGTGGCAGTCGAGATCAAAAAATGGAGAATACATTCttccattattaattaatcacaGTGATTATGTTATATCTCAAGAATTCACATCTCAACTACTGGATTCATTGTACAAGCTTACAAAGTCAAAAGGGGAGATTACTCAGTCGTTACTACAGCTATCAGGACGTTTACAACTTTTTACAGCACAAGTTAA...

CDS

Download CDS FASTA

639 bp · LXL04_038628|LXL04_038628|OH1004|CDS

ATGGTAGCAGCTGTTTCATCAATGGAATCCAGTGATGCTTATACGTTGTTGAAAGCATTGTTGGCCATGTGGCAGTCGAGATCAAAAAATGGAGAATACATTCTTCCATTATTAATTAATCACAGTGATTATGTTATATCTCAAGAATTCACATCTCAACTACTGGATTCATTGTACAAGCTTACAAAGTCAAAAGGGGAGATTACTCAGTCGTTACTACAGCTATCAGGACGTTTACAACTTTTTACAGCACAAGTTAA...

Protein

Download Protein FASTA

212 aa · LXL04_038628|LXL04_038628|OH1004|PROTEIN

MVAAVSSMESSDAYTLLKALLAMWQSRSKNGEYILPLLINHSDYVISQEFTSQLLDSLYKLTKSKGEITQSLLQLSGRLQLFTAQVNVSINMKLRKNSIMLEVSSGERTSSGIANSSKRRRHSGLESELDNLRKELSSTDGGIFPHSVLSTQQITMLCSQKPETTQQLEKIIGKLKTQKYGDKILEVIGKHEPDEVQDHDSPSEEEEERKRV

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_038628`
TK1151 ID	TkA04G451490
OH-1004 ID	LXL04_038628
Relationship / confidence	Multi Candidate From Tk1151 / Complex relationship
Protein identity (%)	98.100
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

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_038628

Location Chr09:46720997-46722535 (+)

Description Similar to RECQL2: ATP-dependent DNA helicase Q-like 2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g31360`	3'-5' DNA helicase that may play a role in the repair of DNA.	AtRECQ2, a RecQ helicase homologue from Arabidopsis thaliana, is able to disrupt various recombinogenic DNA structures in vitro.2008 · DOI: 10.1111/j.0960-7412.2008.03511.x Biochemical characterization of AtRECQ3 reveals significant differences relative to other RecQ helicases.2009 · DOI: 10.1104/pp.109.144709 Fork sensing and strand switching control antagonistic activities of RecQ helicases.2013 · DOI: 10.1038/ncomms3024

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_038628 · 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:0006310 DNA recombination Biological Process

GO:0005634 nucleus Cellular Component

GO:0005694 chromosome Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0016592 mediator complex Cellular Component

GO:0003677 DNA binding Molecular Function

GO:0005524 ATP binding Molecular Function

GO:0009378 four-way junction helicase activity Molecular Function

GO:0016887 ATP hydrolysis activity Molecular Function

KEGG gene cross-reference

ath:AT1G31360

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.

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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.

Nucleus0.839

Rank 1 · LXL04_038628 · OH-1004

Cytoplasm0.227

Rank 2 · LXL04_038628 · OH-1004

Mitochondrion0.048

Rank 3 · LXL04_038628 · OH-1004

Cell membrane0.024

Rank 4 · LXL04_038628 · OH-1004

Golgi apparatus0.014

Rank 5 · LXL04_038628 · 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.

PF00570.29HRDC126-188 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_038628	`PF00570.29`	HRDC	126	188	1.8e-09	38.1

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
`Q9FT73`	Arabidopsis thaliana	ATP-dependent DNA helicase Q-like 2	56.667%	Swiss-Prot	weak database homology

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