LXL04_026009 | RubberDandelionOmics

Gene overview

LXL04_026009

Reference: OH-1004 Chr: Chr05 Coordinates: 119721476-119723111 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1467 bp · LXL04_026009|LXL04_026009|OH1004|cDNA

ATGAAGATGAAAATGGCAATCTTCCACCGAAATGATCAAGGGTCGCTTGTTTTCAACCCCGCACCGGCCGCCGACGGCAATTACAAGCTCTGGTCCTCATGCCGTCGCAAAATTATTGATGCCATGAGGTGCAGCGGCGGAATATCTCGCCACCAGAAGTCTGTCAAGTCGTCGGTGGCGGAGAATCCCAAATTGGAAGAGGTAAAGAGTTCGATGTCGGAATGTAGATCGGATAGTAGTAAGAATAATGGTAGTAATAA...

CDS

Download CDS FASTA

1467 bp · LXL04_026009|LXL04_026009|OH1004|CDS

ATGAAGATGAAAATGGCAATCTTCCACCGAAATGATCAAGGGTCGCTTGTTTTCAACCCCGCACCGGCCGCCGACGGCAATTACAAGCTCTGGTCCTCATGCCGTCGCAAAATTATTGATGCCATGAGGTGCAGCGGCGGAATATCTCGCCACCAGAAGTCTGTCAAGTCGTCGGTGGCGGAGAATCCCAAATTGGAAGAGGTAAAGAGTTCGATGTCGGAATGTAGATCGGATAGTAGTAAGAATAATGGTAGTAATAA...

Protein

Download Protein FASTA

488 aa · LXL04_026009|LXL04_026009|OH1004|PROTEIN

MKMKMAIFHRNDQGSLVFNPAPAADGNYKLWSSCRRKIIDAMRCSGGISRHQKSVKSSVAENPKLEEVKSSMSECRSDSSKNNGSNKGSEMLSTLMRMSESSSEEERSVKLREVVKRLQSGGDGDALGGAREVRELTKDDSQARTNLALLGAIPPLVAMLNSGDIHSQISALYALLNLGIGNDLNKSAIVEAGAVHKMLDLIKSPIQGSPSPDLSAAIVANFLGLTALDSNKSIIGASGAISFLIKTLKTWTKSNSDSQA...

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_026009`
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_026009

Location Chr05:119721476-119723111 (-)

Description Similar to PUB12: U-box domain-containing protein 12

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g46510`	Functions as an E3 ubiquitin ligase.	No verified direct reference in this release
`At1g71020`	Functions as an E3 ubiquitin ligase.	No verified direct reference in this release
`At2g28830`	Functions as an E3 ubiquitin ligase.	No verified direct reference in this release
`At1g23030`	Functions as an E3 ubiquitin ligase.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os06g0102700`	Possesses E3 ubiquitin-protein ligase in vitro.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_026009 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0007166 cell surface receptor signaling pathway Biological Process

GO:0016567 protein ubiquitination Biological Process

GO:0031648 protein destabilization Biological Process

GO:0042742 defense response to bacterium Biological Process

GO:0050777 negative regulation of immune response Biological Process

GO:0051865 protein autoubiquitination Biological Process

GO:0090333 regulation of stomatal closure Biological Process

GO:2000022 regulation of jasmonic acid mediated signaling pathway Biological Process

GO:2000028 regulation of photoperiodism, flowering Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005829 cytosol Cellular Component

KEGG gene cross-reference

ath:AT1G23030

ath:AT1G71020

ath:AT2G28830

ath:AT3G46510

dosa:Os06g0102700

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.

Cytoplasm0.424

Rank 1 · LXL04_026009 · OH-1004

Nucleus0.356

Rank 2 · LXL04_026009 · OH-1004

Cell membrane0.221

Rank 3 · LXL04_026009 · OH-1004

Endoplasmic reticulum0.067

Rank 4 · LXL04_026009 · OH-1004

Plastid0.059

Rank 5 · LXL04_026009 · 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.

PF24768.2ARM_ARMC5130-304 aa

PF25598.2ARM_PUB229-395 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_026009	`PF24768.2`	ARM_ARMC5	130	304	9.9e-10	39.0
LXL04_026009	`PF25598.2`	ARM_PUB	229	395	3.6e-09	37.2

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
`Q9SNC6`	Arabidopsis thaliana	U-box domain-containing protein 13	32.414%	Swiss-Prot	moderate database homology
`Q9C9A6`	Arabidopsis thaliana	U-box domain-containing protein 10	31.615%	Swiss-Prot	moderate database homology
`Q9ZV31`	Arabidopsis thaliana	U-box domain-containing protein 12	31.615%	Swiss-Prot	moderate database homology
`Q8GUG9`	Arabidopsis thaliana	U-box domain-containing protein 11	28.966%	Swiss-Prot	weak database homology
`Q5VRH9`	Oryza sativa subsp. japonica	U-box domain-containing protein 12	31.834%	Swiss-Prot	moderate database homology

JBrowse

View in Genome Browser

Gene Card