LXL04_039603 | RubberDandelionOmics

Gene overview

LXL04_039603

Reference: OH-1004 Chr: JAJTUU010000017.1 Coordinates: 563551-565853 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

465 bp · LXL04_039603|LXL04_039603|OH1004|cDNA

ATGAAAGCAAATGCATGGCATCATTGTGCAGATGATGTTTCCTTACTTGCTGCTCTTATAGGGTTGGTAGAAAAATCTCACAATGCTGATCTTCATTGTGTTGATTGGAATCCGATTGATGAAAATTTCATTTTAACTGGAGAATGTGCAGAAAAACTCCAACTTCTGAGTACACTAGATGAACGGGAAAGCAGATTACAAGAAATCCCAGACGTCCATTCAGATTTTAAAATGAATCCACATTACGAATCAGATGACAC...

CDS

Download CDS FASTA

465 bp · LXL04_039603|LXL04_039603|OH1004|CDS

ATGAAAGCAAATGCATGGCATCATTGTGCAGATGATGTTTCCTTACTTGCTGCTCTTATAGGGTTGGTAGAAAAATCTCACAATGCTGATCTTCATTGTGTTGATTGGAATCCGATTGATGAAAATTTCATTTTAACTGGAGAATGTGCAGAAAAACTCCAACTTCTGAGTACACTAGATGAACGGGAAAGCAGATTACAAGAAATCCCAGACGTCCATTCAGATTTTAAAATGAATCCACATTACGAATCAGATGACAC...

Protein

Download Protein FASTA

154 aa · LXL04_039603|LXL04_039603|OH1004|PROTEIN

MKANAWHHCADDVSLLAALIGLVEKSHNADLHCVDWNPIDENFILTGECAEKLQLLSTLDERESRLQEIPDVHSDFKMNPHYESDDTEEYFNKEHGDHMESKYSEVKVKKSRSPKKRGSSFEHNLHFEAYVGDIIPYALELVQCVYTKCQISVK

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_039603`
Source version	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_039603

Location JAJTUU010000017.1:563551-565853 (+)

Description Similar to MSI4: WD-40 repeat-containing protein MSI4

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g19520`	Core histone-binding subunit that may target chromatin assembly factors, chromatin remodeling factors and histone deacetylases to their histone substrates in a manner that is regulated by nucleosomal DNA.	Regulation of flowering time by FVE, a retinoblastoma-associated protein.2004 · DOI: 10.1038/ng1295 A genetic link between cold responses and flowering time through FVE in Arabidopsis thaliana.2004 · DOI: 10.1038/ng1298
`UniProt: Q9SIV5`	Plays a central role in integrating RNA silencing and chromatin signals in 21 nt siRNA-dependent DNA methylation on cytosine pathway leading to transcriptional gene silencing of specific sequences.	No verified direct reference in this release
`At4g29730`	Core histone-binding subunit that may target chromatin assembly factors, chromatin remodeling factors and histone deacetylases to their histone substrates in a manner that is regulated by nucleosomal DNA (By similarity).	Arabidopsis PWWP domain proteins mediate H3K27 trimethylation on FLC and regulate flowering time.2018 · DOI: 10.1111/jipb.12630

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_039603 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006281 DNA 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:0009627 systemic acquired resistance Biological Process

GO:0009908 flower development Biological Process

GO:0010224 response to UV-B Biological Process

GO:0010629 negative regulation of gene expression Biological Process

GO:0030154 cell differentiation Biological Process

GO:0040029 epigenetic regulation of gene expression Biological Process

GO:0048510 regulation of timing of transition from vegetative to reproductive phase Biological Process

GO:0080188 gene silencing by siRNA-directed DNA methylation Biological Process

KEGG gene cross-reference

ath:AT2G16485

ath:AT2G19520

ath:AT4G29730

These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.

Open Annotation Module

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.

Nucleus0.581

Rank 1 · LXL04_039603 · OH-1004

Cytoplasm0.370

Rank 2 · LXL04_039603 · OH-1004

Cell membrane0.062

Rank 3 · LXL04_039603 · OH-1004

Mitochondrion0.061

Rank 4 · LXL04_039603 · OH-1004

Golgi apparatus0.043

Rank 5 · LXL04_039603 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

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Predicted Functional Domains

No result was found for this query.

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
`O22607`	Arabidopsis thaliana	WD-40 repeat-containing protein MSI4	61.765%	Swiss-Prot	weak database homology
`Q9SIV5`	Arabidopsis thaliana	Zinc finger CCCH domain-containing protein 19	43.421%	Swiss-Prot	weak database homology
`Q9SU78`	Arabidopsis thaliana	WD-40 repeat-containing protein MSI5	80.000%	Swiss-Prot	weak database homology

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