LXL04_024204 | RubberDandelionOmics

Gene overview

LXL04_024204

Reference: OH-1004 Chr: Chr05 Coordinates: 84559148-84561644 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1281 bp · LXL04_024204|LXL04_024204|OH1004|cDNA

ATGTCTGAGCATCATCCTGGAATCACCTCCCAGACTGTGACTGCCGCTTTGCTTTATTTGTATGTGTTACAGGGCTTTTCAGTGACCCGTACAGTTGGACCGTATCCCAATTCTCCGGTCATATCGGAATTTAGACGACCAAATTCCTCCGCCGTACCGACTTTTATCGCCGCCGACCTCGCTGCGAAACCGGCTTCAACTCCCTCTCTCTCGTCGCTTAAGCAGCAGAATTTTGTGTTTCTTCAGAAGGAATTGGAGCT...

CDS

Download CDS FASTA

1281 bp · LXL04_024204|LXL04_024204|OH1004|CDS

ATGTCTGAGCATCATCCTGGAATCACCTCCCAGACTGTGACTGCCGCTTTGCTTTATTTGTATGTGTTACAGGGCTTTTCAGTGACCCGTACAGTTGGACCGTATCCCAATTCTCCGGTCATATCGGAATTTAGACGACCAAATTCCTCCGCCGTACCGACTTTTATCGCCGCCGACCTCGCTGCGAAACCGGCTTCAACTCCCTCTCTCTCGTCGCTTAAGCAGCAGAATTTTGTGTTTCTTCAGAAGGAATTGGAGCT...

Protein

Download Protein FASTA

426 aa · LXL04_024204|LXL04_024204|OH1004|PROTEIN

MSEHHPGITSQTVTAALLYLYVLQGFSVTRTVGPYPNSPVISEFRRPNSSAVPTFIAADLAAKPASTPSLSSLKQQNFVFLQKELELMVRDVKNHHPEEEEDEEDFISRTTDGSSQKDGRRNDQKAGSHRSKHSETEQRRRSKINERHACLFFSSYLRLFCYSVTYTYFLHIKDFLFQILRDLIPQNDQKRDRASFLLEVIQYIQFLQEKLQLYEGTYHGWSPEPTKLMPWRGNGGTDTFTDQSHPIKNGSVDEGNIVFP...

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_024204`
TK1151 ID	TkA06G164760
OH-1004 ID	LXL04_024204
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	87.300
Protein coverage (%)	TK1151 100.000 / OH-1004 79.577 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_024204

Location Chr05:84559148-84561644 (-)

Description Similar to BIM2: Transcription factor BIM2

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g69010`	Positive brassinosteroid-signaling protein.	No verified direct reference in this release
`At5g08130`	Positive brassinosteroid-signaling protein.	A new class of transcription factors mediates brassinosteroid-regulated gene expression in Arabidopsis.2005 · DOI: 10.1016/j.cell.2004.11.044
`At5g38860`	Positive brassinosteroid-signaling protein.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_024204 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006351 DNA-templated transcription Biological Process

GO:0006355 regulation of DNA-templated transcription Biological Process

GO:0009742 brassinosteroid mediated signaling pathway Biological Process

GO:1902448 positive regulation of shade avoidance Biological Process

GO:0005634 nucleus Cellular Component

GO:0000976 transcription cis-regulatory region binding Molecular Function

GO:0003677 DNA binding Molecular Function

GO:0003700 DNA-binding transcription factor activity Molecular Function

GO:0042802 identical protein binding Molecular Function

GO:0046983 protein dimerization activity Molecular Function

KEGG gene cross-reference

ath:AT1G69010

ath:AT5G08130

ath:AT5G38860

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.

Nucleus0.945

Rank 1 · LXL04_024204 · OH-1004

Cytoplasm0.180

Rank 2 · LXL04_024204 · OH-1004

Cell membrane0.022

Rank 3 · LXL04_024204 · OH-1004

Mitochondrion0.015

Rank 4 · LXL04_024204 · OH-1004

Endoplasmic reticulum0.012

Rank 5 · LXL04_024204 · 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.

PF00010.32HLH177-208 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_024204	`PF00010.32`	HLH	177	208	1.2e-08	35.3

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
`Q9CAA4`	Arabidopsis thaliana	Transcription factor BIM2	39.557%	Swiss-Prot	moderate database homology
`Q9LEZ3`	Arabidopsis thaliana	Transcription factor BIM1	35.806%	Swiss-Prot	moderate database homology
`Q9FMB6`	Arabidopsis thaliana	Transcription factor BIM3	33.237%	Swiss-Prot	moderate database homology

JBrowse

View in Genome Browser

Gene Card