LXL04_022838 | RubberDandelionOmics

Gene overview

LXL04_022838

Reference: OH-1004 Chr: Chr05 Coordinates: 10637974-10643478 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

3249 bp · LXL04_022838|LXL04_022838|OH1004|cDNA

ATGAAGCAGCACACACAGGGGAGAGAGATGGCGGATGCCTCCTCCAAGAAACCCATGAGTTTGAATCAGCTTCACAATCGCTTCCTCACCCCTTCTCATTCGAAAGCTTCTCCTTACGATCTCCTATCCGAAATGAAAAACCGGGAGAGGCAGGAGGAATACGATGCACCTTCCTTTAATATCACTGATTTCGATTCTCCTTCTGAAATGAAAAACCTGGAGCTGCAGGAGGAATACGATGATCCTTCATTTAATATCAC...

CDS

Download CDS FASTA

3249 bp · LXL04_022838|LXL04_022838|OH1004|CDS

ATGAAGCAGCACACACAGGGGAGAGAGATGGCGGATGCCTCCTCCAAGAAACCCATGAGTTTGAATCAGCTTCACAATCGCTTCCTCACCCCTTCTCATTCGAAAGCTTCTCCTTACGATCTCCTATCCGAAATGAAAAACCGGGAGAGGCAGGAGGAATACGATGCACCTTCCTTTAATATCACTGATTTCGATTCTCCTTCTGAAATGAAAAACCTGGAGCTGCAGGAGGAATACGATGATCCTTCATTTAATATCAC...

Protein

Download Protein FASTA

1082 aa · LXL04_022838|LXL04_022838|OH1004|PROTEIN

MKQHTQGREMADASSKKPMSLNQLHNRFLTPSHSKASPYDLLSEMKNRERQEEYDAPSFNITDFDSPSEMKNLELQEEYDDPSFNITDFDSTSGTRTKVVSDGKIVSVEALEQADDIENSASHGEAGSTRSRSSFPEKITSSEDELPAADQRESSASIGGPVTSHMDSLTSEHVSVKRQKVKIQGRRRLCKVAVKDEEEEKEDENFQDVESDFTAAVSDFDSPVPVKTTENKRESGDEIRDILSDLSSRLEILSIEKGRR...

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_022838`
TK1151 ID	TkA06G441110
OH-1004 ID	LXL04_022838
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	98.300
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_022838

Location Chr05:10637974-10643478 (+)

Description Similar to CHR24: Protein CHROMATIN REMODELING 24

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g63950`	DNA helicase that acts as an essential component of the spindle assembly checkpoint (By similarity).	A transient assay for recombination demonstrates that Arabidopsis SNM1 and XRCC3 enhance non-homologous recombination.2011 · DOI: 10.4238/vol10-3gmr1347

Rice

Reference gene ID	Possible function	Papers / DOI
`Os04g0692750`	DNA helicase that acts as an essential component of the spindle assembly checkpoint (By similarity).	Rice SNF2 family helicase ENL1 is essential for syncytial endosperm development.2015 · DOI: 10.1111/tpj.12705

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_022838 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006281 DNA repair Biological Process

GO:0006310 DNA recombination Biological Process

GO:0010965 regulation of mitotic sister chromatid separation Biological Process

GO:0016539 intein-mediated protein splicing Biological Process

GO:0045951 positive regulation of mitotic recombination Biological Process

GO:0051301 cell division Biological Process

GO:2000014 regulation of endosperm development Biological Process

GO:0000776 kinetochore Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005694 chromosome Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0003677 DNA binding Molecular Function

KEGG gene cross-reference

ath:AT5G63950

bta:782916

dosa:Os04g0692750

dre:100005291

mmu:236930

osa:9266414

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.

Nucleus0.841

Rank 1 · LXL04_022838 · OH-1004

Cytoplasm0.211

Rank 2 · LXL04_022838 · OH-1004

Mitochondrion0.039

Rank 3 · LXL04_022838 · OH-1004

Cell membrane0.027

Rank 4 · LXL04_022838 · OH-1004

Endoplasmic reticulum0.016

Rank 5 · LXL04_022838 · 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.

PF04851.22ResIII376-542 aa

PF00176.30SNF2-rel_dom379-678 aa

PF00271.38Helicase_C736-845 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_022838	`PF04851.22`	ResIII	376	542	2.8e-08	34.5
LXL04_022838	`PF00176.30`	SNF2-rel_dom	379	678	7.7e-59	199.9
LXL04_022838	`PF00271.38`	Helicase_C	736	845	5.5e-24	85.3

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
`Q8W103`	Arabidopsis thaliana	Protein CHROMATIN REMODELING 24	68.414%	Swiss-Prot	moderate database homology
`A0A0P0WGX7`	Oryza sativa subsp. japonica	SNF2 domain-containing protein ENL1	61.050%	Swiss-Prot	moderate database homology

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