LXL04_008058 | RubberDandelionOmics

Gene overview

LXL04_008058

Reference: OH-1004 Chr: Chr02 Coordinates: 82923514-82923864 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

351 bp · LXL04_008058|LXL04_008058|OH1004|cDNA

ATGGCTTTCGAGGTAGGTCACGAGGTGGAGGTCTTTGGCGTCGACGAAGGCTATAACAATGCCTTCTATGCAGGTCAAATAACGGCGATCAATGGAACTGAGGTCGAAGTTGCCTACGATAACAAAAAAACTTTATCAGGCGAACCGTTGGTGGAAACTGTTGTTCAAAGTCAGGTTCGTAGGATACCTGAAGCTGTTATTGCAGATTTCGAAGCTGGTGATTCTGTAGAAGTTTGGCTATCTGGAGGTTGGTGGCGCGG...

CDS

Download CDS FASTA

351 bp · LXL04_008058|LXL04_008058|OH1004|CDS

ATGGCTTTCGAGGTAGGTCACGAGGTGGAGGTCTTTGGCGTCGACGAAGGCTATAACAATGCCTTCTATGCAGGTCAAATAACGGCGATCAATGGAACTGAGGTCGAAGTTGCCTACGATAACAAAAAAACTTTATCAGGCGAACCGTTGGTGGAAACTGTTGTTCAAAGTCAGGTTCGTAGGATACCTGAAGCTGTTATTGCAGATTTCGAAGCTGGTGATTCTGTAGAAGTTTGGCTATCTGGAGGTTGGTGGCGCGG...

Protein

Download Protein FASTA

116 aa · LXL04_008058|LXL04_008058|OH1004|PROTEIN

MAFEVGHEVEVFGVDEGYNNAFYAGQITAINGTEVEVAYDNKKTLSGEPLVETVVQSQVRRIPEAVIADFEAGDSVEVWLSGGWWRGIVVAVDDFFARVYFAYRPPGHQHSVLSSD

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_008058`
TK1151 ID	TkA03G609900
OH-1004 ID	LXL04_008058
Relationship / confidence	Multi Candidate From Tk1151 / Complex relationship
Protein identity (%)	71.800
Protein coverage (%)	TK1151 78.571 / OH-1004 94.828 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_008058

Location Chr02:82923514-82923864 (+)

Description Similar to AGDP1: Protein AGENET DOMAIN (AGD)-CONTAINING P1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g09320`	Heterochromatin-binding protein that preferentially occupies long transposons and specifically recognizes the histone H3 'Lys-9' methylation (H3K9me) marks, with a stronger affinity for dimethylated H3K9 (H3K9me2).	Arabidopsis AGDP1 links H3K9me2 to DNA methylation in heterochromatin.2018 · DOI: 10.1038/s41467-018-06965-w Plant HP1 protein ADCP1 links multivalent H3K9 methylation readout to heterochromatin formation.2019 · DOI: 10.1038/s41422-018-0104-9

Rice

No hit for this species in the current source table.

Functional annotation source

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Functional annotation source: OH1004 · LXL04_008058 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006346 DNA methylation-dependent constitutive heterochromatin formation Biological Process

GO:0000775 chromosome, centromeric region Cellular Component

GO:0000792 heterochromatin Cellular Component

GO:0005634 nucleus Cellular Component

GO:0042393 histone binding Molecular Function

GO:0140566 histone reader activity Molecular Function

KEGG gene cross-reference

ath:AT1G09320

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.

Nucleus0.610

Rank 1 · LXL04_008058 · OH-1004

Cytoplasm0.577

Rank 2 · LXL04_008058 · OH-1004

Endoplasmic reticulum0.046

Rank 3 · LXL04_008058 · OH-1004

Cell membrane0.034

Rank 4 · LXL04_008058 · OH-1004

Mitochondrion0.030

Rank 5 · LXL04_008058 · 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.

PF05641.19Agenet6-63 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_008058	`PF05641.19`	Agenet	6	63	1.3e-13	52.0

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
`Q500V5`	Arabidopsis thaliana	Protein AGENET DOMAIN (AGD)-CONTAINING P1	32.632%	Swiss-Prot	moderate database homology

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