LXL04_039880 | RubberDandelionOmics

Gene overview

LXL04_039880

Reference: OH-1004 Chr: JAJTUU010000059.1 Coordinates: 107009-109528 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1749 bp · LXL04_039880|LXL04_039880|OH1004|cDNA

ATGGCTGCCTGTTGCTTTGAGTTGGAAATCGAAATCGGTCTTGCTTTGAAATTGGAAATCGTTGCTGCTTTGAATTGGAAATCGTTGCATCCTCTGAAATCGGTGCTGCCTGTTGAAATCGATTTGCATCCTCTGAAATCGGTGTTGCATCCTCTTAAATCGGTGTTGAATTGGAAATCGGTGCTGCCTGTTGTAATCGATTTGCCTGAAATCGGTGGTGTTGCTTCAAATTTTTCTTCCCGTGAATTTGCTTCCATCTC...

CDS

Download CDS FASTA

1749 bp · LXL04_039880|LXL04_039880|OH1004|CDS

ATGGCTGCCTGTTGCTTTGAGTTGGAAATCGAAATCGGTCTTGCTTTGAAATTGGAAATCGTTGCTGCTTTGAATTGGAAATCGTTGCATCCTCTGAAATCGGTGCTGCCTGTTGAAATCGATTTGCATCCTCTGAAATCGGTGTTGCATCCTCTTAAATCGGTGTTGAATTGGAAATCGGTGCTGCCTGTTGTAATCGATTTGCCTGAAATCGGTGGTGTTGCTTCAAATTTTTCTTCCCGTGAATTTGCTTCCATCTC...

Protein

Download Protein FASTA

582 aa · LXL04_039880|LXL04_039880|OH1004|PROTEIN

MAACCFELEIEIGLALKLEIVAALNWKSLHPLKSVLPVEIDLHPLKSVLHPLKSVLNWKSVLPVVIDLPEIGGVASNFSSREFASISNSSPNVVEKKKYKPKHVWNTDTTTYFIDMCLNEKLKGNKPGSHLNKAGWLNLEKAMLEKTGKVFDKKQLSNKWDGMKKDWKLYDRLMRLKTGIGGTRSLIDSSEEWWAEKINVNKEFAKFKDTNLDIFATHYAPLFQDSVAVGDHTMTPLQFHDEENTEGQGDSDEIKLADDD...

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_039880`
TK1151 ID	TkA04G432910
OH-1004 ID	LXL04_039880
Relationship / confidence	Sequence Supported Annotation Or Model Conflict / Review
Protein identity (%)	96.500
Protein coverage (%)	TK1151 98.696 / OH-1004 39.003 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

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_039880

Location JAJTUU010000059.1:107009-109528 (-)

Description Similar to LIMYB: L10-interacting MYB domain-containing protein

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g05800`	Transcriptional repressor that associates with ribosomal protein promoters.	NIK1-mediated translation suppression functions as a plant antiviral immunity mechanism.2015 · DOI: 10.1038/nature14171

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_039880 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006351 DNA-templated transcription Biological Process

GO:0005634 nucleus Cellular Component

GO:0001227 DNA-binding transcription repressor activity, RNA polymerase II-specific Molecular Function

KEGG gene cross-reference

ath:AT5G05800

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.

Nucleus0.882

Rank 1 · LXL04_039880 · OH-1004

Cytoplasm0.205

Rank 2 · LXL04_039880 · OH-1004

Mitochondrion0.027

Rank 3 · LXL04_039880 · OH-1004

Cell membrane0.027

Rank 4 · LXL04_039880 · OH-1004

Endoplasmic reticulum0.019

Rank 5 · LXL04_039880 · 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.

PF12776.14Myb_DNA-bind_3105-195 aa

PF13359.13DDE_Tnp_4407-518 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_039880	`PF12776.14`	Myb_DNA-bind_3	105	195	1e-12	49.5
LXL04_039880	`PF13359.13`	DDE_Tnp_4	407	518	1.7e-11	44.7

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
`Q9FFJ8`	Arabidopsis thaliana	L10-interacting MYB domain-containing protein	41.333%	Swiss-Prot	weak database homology

JBrowse

View in Genome Browser

Gene Card