LXL04_029594 | RubberDandelionOmics

Gene overview

LXL04_029594

Reference: OH-1004 Chr: Chr06 Coordinates: 95000811-95001296 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

486 bp · LXL04_029594|LXL04_029594|OH1004|cDNA

ATGGGTTACACAGATCTCTTCCTCCCACAACTCATCGTCCATATCTTAACCCTTCTAGGTGTCATCCATAGCCTCATTTCTTCCCTTTTCTCCTTTATCGGACTCAAAGATATATTTCATCCCATCTCTCAATCCAACGCGCCACAATCTGAGCTGCCAACTCAGTTCCAGACGTTATCCGCCGTCCTCCTCCGTGAACTCCTTCCTGTCGTCAAGTTCACAGAGCTCGTAGACCCTCCCGAGACCTGTGTAGTATGTCT...

CDS

Download CDS FASTA

486 bp · LXL04_029594|LXL04_029594|OH1004|CDS

ATGGGTTACACAGATCTCTTCCTCCCACAACTCATCGTCCATATCTTAACCCTTCTAGGTGTCATCCATAGCCTCATTTCTTCCCTTTTCTCCTTTATCGGACTCAAAGATATATTTCATCCCATCTCTCAATCCAACGCGCCACAATCTGAGCTGCCAACTCAGTTCCAGACGTTATCCGCCGTCCTCCTCCGTGAACTCCTTCCTGTCGTCAAGTTCACAGAGCTCGTAGACCCTCCCGAGACCTGTGTAGTATGTCT...

Protein

Download Protein FASTA

161 aa · LXL04_029594|LXL04_029594|OH1004|PROTEIN

MGYTDLFLPQLIVHILTLLGVIHSLISSLFSFIGLKDIFHPISQSNAPQSELPTQFQTLSAVLLRELLPVVKFTELVDPPETCVVCLYEFDAGDEIRVLTNCRHVFHRCCVDRWMDHDRKTCPLCRTPFISEDLQDSFNERLWAASGFADYYGESSLAGTS

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_029594`
TK1151 ID	TkA07G327130
OH-1004 ID	LXL04_029594
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.400
Protein coverage (%)	TK1151 96.970 / OH-1004 99.379 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_029594

Location Chr06:95000811-95001296 (+)

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
`At3g18773`	RING-H2 finger protein ATL77.	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_029594 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

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:1901371 regulation of leaf morphogenesis Biological Process

GO:1905421 regulation of plant organ morphogenesis Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005789 endoplasmic reticulum membrane Cellular Component

GO:0016020 membrane Cellular Component

GO:0004842 ubiquitin-protein transferase activity Molecular Function

KEGG gene cross-reference

ath:AT3G18773

ath:AT3G61460

ath:AT4G11360

ath:AT4G11370

spo:2541304

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.

Endoplasmic reticulum0.316

Rank 1 · LXL04_029594 · OH-1004

Cytoplasm0.268

Rank 2 · LXL04_029594 · OH-1004

Nucleus0.207

Rank 3 · LXL04_029594 · OH-1004

Golgi apparatus0.206

Rank 4 · LXL04_029594 · OH-1004

Lysosome / Vacuole0.184

Rank 5 · LXL04_029594 · 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-rbx181-126 aa

PF13639.13zf-RING_282-126 aa

PF12861.14zf-ANAPC1182-130 aa

PF17123.12zf-RING_1183-111 aa

PF13923.13zf-C3HC4_283-125 aa

PF14634.13zf-RING_583-127 aa

PF00097.32zf-C3HC483-125 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_029594	`PF12678.14`	zf-rbx1	81	126	2.6e-09	37.9
LXL04_029594	`PF13639.13`	zf-RING_2	82	126	4.7e-13	49.9
LXL04_029594	`PF12861.14`	zf-ANAPC11	82	130	4.2e-06	27.4
LXL04_029594	`PF17123.12`	zf-RING_11	83	111	8.8e-08	32.4
LXL04_029594	`PF13923.13`	zf-C3HC4_2	83	125	1.3e-06	28.8
LXL04_029594	`PF14634.13`	zf-RING_5	83	127	2e-06	28.4
LXL04_029594	`PF00097.32`	zf-C3HC4	83	125	9.9e-06	26.0

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q9XF92`	Arabidopsis thaliana	Brassinosteroid-responsive RING protein 1	52.500%	Swiss-Prot	strong database homology
`Q9SUS4`	Arabidopsis thaliana	Probable E3 ubiquitin-protein ligase RHA1A	33.987%	Swiss-Prot	moderate database homology
`Q9SUS5`	Arabidopsis thaliana	E3 ubiquitin-protein ligase RHA1B	34.899%	Swiss-Prot	moderate database homology
`Q9LS99`	Arabidopsis thaliana	RING-H2 finger protein ATL77	33.594%	Swiss-Prot	moderate database homology

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