LXL04_011424 | RubberDandelionOmics

Gene overview

LXL04_011424

Reference: OH-1004 Chr: Chr02 Coordinates: 164044214-164044675 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

462 bp · LXL04_011424|LXL04_011424|OH1004|cDNA

ATGTCCAAATACATTCTCTACATATTTTCTCTTCTATGTTCTATTCAAAATATCATTCTATCTGTACTTCACTTGATCCGTATCACTCATGTAGTCGAATCCCACCATCCCAATCATAAGAAACCATCCAAAAACCCGCCCCTTTCAGCAGTGCTGACACGTGAATTTCTTGCGGTCACAAACTTTGTGGACATTCAGAAGAAAGATTTAGCTACCAGTTGTGCAGTCTGCTTGAACGACTTCATGGAAGATGACAAGAT...

CDS

Download CDS FASTA

462 bp · LXL04_011424|LXL04_011424|OH1004|CDS

ATGTCCAAATACATTCTCTACATATTTTCTCTTCTATGTTCTATTCAAAATATCATTCTATCTGTACTTCACTTGATCCGTATCACTCATGTAGTCGAATCCCACCATCCCAATCATAAGAAACCATCCAAAAACCCGCCCCTTTCAGCAGTGCTGACACGTGAATTTCTTGCGGTCACAAACTTTGTGGACATTCAGAAGAAAGATTTAGCTACCAGTTGTGCAGTCTGCTTGAACGACTTCATGGAAGATGACAAGAT...

Protein

Download Protein FASTA

153 aa · LXL04_011424|LXL04_011424|OH1004|PROTEIN

MSKYILYIFSLLCSIQNIILSVLHLIRITHVVESHHPNHKKPSKNPPLSAVLTREFLAVTNFVDIQKKDLATSCAVCLNDFMEDDKIRCLKNCTHIFHECCLDSWMNQVKDTCPICRSPILPVECQDEYIKRLRDVATDLHDFHDEVLLIHEL

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_011424`
TK1151 ID	TkA03G586870
OH-1004 ID	LXL04_011424
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	99.300
Protein coverage (%)	TK1151 93.293 / OH-1004 100.000 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

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_011424

Location Chr02:164044214-164044675 (+)

Description Similar to BRH1: Brassinosteroid-responsive RING protein 1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g61460`	May be involved in the brassinosteroids (BRs) signaling pathway and regulate the growth and development of rosette leaves.	Characterisation of BRH1, a brassinosteroid-responsive RING-H2 gene from Arabidopsis thaliana.2002 · DOI: 10.1007/s00425-001-0723-z Overexpressed BRH1, a RING finger gene, alters rosette leaf shape in Arabidopsis thaliana.2018 · DOI: 10.1007/s11427-017-9133-8
`At4g11370`	Probable E3 ubiquitin-protein ligase that may possess E3 ubiquitin ligase activity in vitro.	No verified direct reference in this release
`At4g11360`	Possesses E3 ubiquitin-protein ligase activity when associated with the E2 enzyme UBC8 in vitro.	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_011424 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000209 protein polyubiquitination Biological Process

GO:0006511 ubiquitin-dependent protein catabolic process Biological Process

GO:0009741 response to brassinosteroid Biological Process

GO:0009742 brassinosteroid mediated signaling pathway Biological Process

GO:0010200 response to chitin Biological Process

GO:0016567 protein ubiquitination Biological Process

GO:0031669 cellular response to nutrient levels Biological Process

GO:0032418 lysosome localization Biological Process

GO:0034198 cellular response to amino acid starvation Biological Process

GO:0035519 protein K29-linked ubiquitination Biological Process

GO:0045786 negative regulation of cell cycle Biological Process

GO:0051640 organelle localization Biological Process

KEGG gene cross-reference

ath:AT3G61460

ath:AT4G11360

ath:AT4G11370

hsa:26001

mmu:70510

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.

Cytoplasm0.289

Rank 1 · LXL04_011424 · OH-1004

Endoplasmic reticulum0.282

Rank 2 · LXL04_011424 · OH-1004

Lysosome / Vacuole0.231

Rank 3 · LXL04_011424 · OH-1004

Nucleus0.191

Rank 4 · LXL04_011424 · OH-1004

Cell membrane0.168

Rank 5 · LXL04_011424 · 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.

PF12678.14zf-rbx172-117 aa

PF13639.13zf-RING_273-117 aa

PF17123.12zf-RING_1174-102 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_011424	`PF12678.14`	zf-rbx1	72	117	9.2e-07	29.7
LXL04_011424	`PF13639.13`	zf-RING_2	73	117	4.8e-11	43.5
LXL04_011424	`PF17123.12`	zf-RING_11	74	102	9.6e-06	25.9

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
`Q9XF92`	Arabidopsis thaliana	Brassinosteroid-responsive RING protein 1	37.255%	Swiss-Prot	moderate database homology
`Q9SUS4`	Arabidopsis thaliana	Probable E3 ubiquitin-protein ligase RHA1A	34.247%	Swiss-Prot	moderate database homology
`Q9SUS5`	Arabidopsis thaliana	E3 ubiquitin-protein ligase RHA1B	33.333%	Swiss-Prot	moderate database homology

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