LXL04_000339 | RubberDandelionOmics

Gene overview

LXL04_000339

Reference: OH-1004 Chr: Chr01 Coordinates: 6368798-6375191 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

4541 bp · LXL04_000339|LXL04_000339|OH1004|cDNA

ATGCCAACCCTTAGCTTCTTATCCTGCGCCCCTCCTCCGCCTTCTTCTCCAACAGGCCTAGGgtttctttttctctctctatTCCCAAATAAAATTCATTCTTGTCTTCACAACCCCACGGTTTCACTTTCCTCCACACTGCCGCTTTCGAACACCCCATGGACTCGGATCGCCATATCAGGAACTCGTATAACTATTCGAATCTCTTCAATCTTGAGTCTCTGACGAAATTTCAACTACCTCAAGGTGATGAGTTTGAT...

CDS

Download CDS FASTA

4440 bp · LXL04_000339|LXL04_000339|OH1004|CDS

TTGTCTTCACAACCCCACGGTTTCACTTTCCTCCACACTGCCGCTTTCGAACACCCCATGGACTCGGATCGCCATATCAGGAACTCGTATAACTATTCGAATCTCTTCAATCTTGAGTCTCTGACGAAATTTCAACTACCTCAAGGTGATGAGTTTGATTATTATGCCAATAGTAGTCAGGGTGAGAGCAGAGGTAGCCGAGGTGGACCAATGACAGACCGAAGTAACGGAATGATGTTAGAAAAGAGAAAGAGGCGAAA...

Protein

Download Protein FASTA

1479 aa · LXL04_000339|LXL04_000339|OH1004|PROTEIN

MSSQPHGFTFLHTAAFEHPMDSDRHIRNSYNYSNLFNLESLTKFQLPQGDEFDYYANSSQGESRGSRGGPMTDRSNGMMLEKRKRRNTNTYSSDEDQEGSYDTYFSEEQYRAMLGEHVHKYKRRHKSNNLPSSASTRNGMSGMKTSHGSKDHKSINGRPRGAHKESDFAADYGMERISEPGYLDIGDGITYKIPPMYESLSTSLNLPRTSEIRVEEFYLTGTLDLGSLASMMSADKRLGPKSGSGMGEPKPQYESLWARL...

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_000339`
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_000339

Location Chr01:6368798-6375191 (+)

Description Similar to INO80: Chromatin-remodeling ATPase INO80

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g57300`	ATPase component of the chromatin remodeling INO80 complex which is involved in transcriptional regulation, DNA replication and DNA repair (By similarity).	The INO80 protein controls homologous recombination in Arabidopsis thaliana.2004 · DOI: 10.1016/j.molcel.2004.09.034 Epigenetic silencing of a multifunctional plant stress regulator.2019 · DOI: 10.7554/elife.47835

Rice

No hit for this species in the current source table.

Functional annotation source

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Functional annotation source: OH1004 · LXL04_000339 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000070 mitotic sister chromatid segregation Biological Process

GO:0000723 telomere maintenance Biological Process

GO:0000724 double-strand break repair via homologous recombination Biological Process

GO:0006275 regulation of DNA replication Biological Process

GO:0006281 DNA repair Biological Process

GO:0006282 regulation of DNA repair Biological Process

GO:0006302 double-strand break repair Biological Process

GO:0006338 chromatin remodeling Biological Process

GO:0006351 DNA-templated transcription Biological Process

GO:0006355 regulation of DNA-templated transcription Biological Process

GO:0010228 vegetative to reproductive phase transition of meristem Biological Process

GO:0010571 positive regulation of nuclear cell cycle DNA replication Biological Process

KEGG gene cross-reference

ath:AT3G57300

cim:CIMG_06054

hsa:54617

mmu:68142

uma:UMAG_00751

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.

Nucleus0.933

Rank 1 · LXL04_000339 · OH-1004

Cytoplasm0.136

Rank 2 · LXL04_000339 · OH-1004

Mitochondrion0.025

Rank 3 · LXL04_000339 · OH-1004

Cell membrane0.019

Rank 4 · LXL04_000339 · OH-1004

Endoplasmic reticulum0.008

Rank 5 · LXL04_000339 · 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.

PF13892.12DBINO344-474 aa

PF04851.22ResIII581-748 aa

PF00176.30SNF2-rel_dom585-883 aa

PF00270.36DEAD599-752 aa

PF00271.38Helicase_C1196-1306 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_000339	`PF13892.12`	DBINO	344	474	1.1e-45	156.0
LXL04_000339	`PF04851.22`	ResIII	581	748	6.4e-09	36.6
LXL04_000339	`PF00176.30`	SNF2-rel_dom	585	883	7.4e-87	291.8
LXL04_000339	`PF00270.36`	DEAD	599	752	5.4e-06	27.0
LXL04_000339	`PF00271.38`	Helicase_C	1196	1306	2.3e-23	83.2

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
`Q8RXS6`	Arabidopsis thaliana	Chromatin-remodeling ATPase INO80	66.225%	Swiss-Prot	strong database homology

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