LXL04_031531 | RubberDandelionOmics

Gene overview

LXL04_031531

Reference: OH-1004 Chr: Chr07 Coordinates: 7183069-7184352 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

597 bp · LXL04_031531|LXL04_031531|OH1004|cDNA

ATGGGAAGAATGGACTTTTCCCCAAATCCGAAATCAAATTCTCAAATCAAATTCTCCTTTTCTTTTGAATCGCAATGGCTCGTACGAAGCAGACTGCTCGTAAGTCGACCGGAGGAAAGGCTCCCAGGAAGCAACTTGCTACCAAGTTTCGTAAAATTTCGTTTATTAATCTTTGCGACATTCGAACAGGCTGCCAGGAAATCAGCACCGACAACCGGAGGAGTGAAGAAGCCCCATCGTTACCGTCCTGGAACCGTCGC...

CDS

Download CDS FASTA

597 bp · LXL04_031531|LXL04_031531|OH1004|CDS

ATGGGAAGAATGGACTTTTCCCCAAATCCGAAATCAAATTCTCAAATCAAATTCTCCTTTTCTTTTGAATCGCAATGGCTCGTACGAAGCAGACTGCTCGTAAGTCGACCGGAGGAAAGGCTCCCAGGAAGCAACTTGCTACCAAGTTTCGTAAAATTTCGTTTATTAATCTTTGCGACATTCGAACAGGCTGCCAGGAAATCAGCACCGACAACCGGAGGAGTGAAGAAGCCCCATCGTTACCGTCCTGGAACCGTCGC...

Protein

Download Protein FASTA

198 aa · LXL04_031531|LXL04_031531|OH1004|PROTEIN

MGRMDFSPNPKSNSQIKFSFSFESQWLVRSRLLVSRPEERLPGSNLLPSFVKFRLLIFATFEQAARKSAPTTGGVKKPHRYRPGTVALREIRKYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSHAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRVAFVVTSHEGEVEFELSIVDCKCFTTD

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_031531`
TK1151 ID	TkA08G112060
OH-1004 ID	LXL04_031531
Relationship / confidence	Multi Candidate From Tk1151 / Complex relationship
Protein identity (%)	100.000
Protein coverage (%)	TK1151 86.014 / OH-1004 62.121 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_031531

Location Chr07:7183069-7184352 (+)

Description Similar to Histone H3.3

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

No hit for this species in the current source table.

Rice

Reference gene ID	Possible function	Papers / DOI
`UniProt: Q0JCT1`	Variant histone H3 which replaces conventional H3 in a wide range of nucleosomes in active genes.	No verified direct reference in this release

Functional annotation source

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Functional annotation source: OH1004 · LXL04_031531 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0031507 heterochromatin formation Biological Process

GO:0000786 nucleosome Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005730 nucleolus Cellular Component

GO:0003677 DNA binding Molecular Function

GO:0030527 structural constituent of chromatin Molecular Function

GO:0031492 nucleosomal DNA binding Molecular Function

GO:0046982 protein heterodimerization activity Molecular Function

KEGG gene cross-reference

dosa:Os03g0390600

dosa:Os04g0450800

dosa:Os06g0130900

nta:107801897

nta:107801898

nta:107810536

nta:107813079

nta:107818315

osa:4333019

osa:4340006

vvi:100248958

vvi:100257369

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.

Nucleus0.918

Rank 1 · LXL04_031531 · OH-1004

Cytoplasm0.123

Rank 2 · LXL04_031531 · OH-1004

Cell membrane0.022

Rank 3 · LXL04_031531 · OH-1004

Mitochondrion0.019

Rank 4 · LXL04_031531 · OH-1004

Endoplasmic reticulum0.017

Rank 5 · LXL04_031531 · 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.

PF00125.31Histone83-170 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_031531	`PF00125.31`	Histone	83	170	2.5e-38	131.0

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
`Q0JCT1`	Oryza sativa subsp. japonica	Histone H3.3	99.083%	Swiss-Prot	moderate database homology

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