LXL04_036733 | RubberDandelionOmics

Gene overview

LXL04_036733

Reference: OH-1004 Chr: Chr08 Coordinates: 47436819-47438609 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1491 bp · LXL04_036733|LXL04_036733|OH1004|cDNA

ATGAGAGATTCATATGAAAAGAAGCACATCTACAGTATCACACGTTTATGTCATTTGATGGCGAAAAGCGAGGTGTTTGAAGGGGATCCGAGCGTGGCGGTGGCGAAGGTCACGGCGGAGTTGAAGAAGGAACTGCATAGACTCGTGAAAGCGATTATTGAAGATTCCTCGTCGGAGGACGAAAATGGATTTGGATTTATTGATAGAGCGAATCAGACTTTGCAAGCTTTGAAGGAATTGAAAGAGGGAGGGAAACAACG...

CDS

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1491 bp · LXL04_036733|LXL04_036733|OH1004|CDS

ATGAGAGATTCATATGAAAAGAAGCACATCTACAGTATCACACGTTTATGTCATTTGATGGCGAAAAGCGAGGTGTTTGAAGGGGATCCGAGCGTGGCGGTGGCGAAGGTCACGGCGGAGTTGAAGAAGGAACTGCATAGACTCGTGAAAGCGATTATTGAAGATTCCTCGTCGGAGGACGAAAATGGATTTGGATTTATTGATAGAGCGAATCAGACTTTGCAAGCTTTGAAGGAATTGAAAGAGGGAGGGAAACAACG...

Protein

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496 aa · LXL04_036733|LXL04_036733|OH1004|PROTEIN

MRDSYEKKHIYSITRLCHLMAKSEVFEGDPSVAVAKVTAELKKELHRLVKAIIEDSSSEDENGFGFIDRANQTLQALKELKEGGKQRSSSIKRINDSNRNNNESSTSVWASCPQEFRCPLSKELMRDPVILSTGQTYDRPFIQKWLKAGNRICPRTQQVLSHTILTPNQLVRDMITQWCKNRGVQFPGPIQYPEQDGLTEADRDLFLSLLKKMSSTQSEQKEAARTLRSLTKRMPSFRALFGESLEAIPQLLTPLTQTKS...

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_036733`
TK1151 ID	TkA04G027130
OH-1004 ID	LXL04_036733
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	100.000
Protein coverage (%)	TK1151 100.000 / OH-1004 96.169 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_036733

Location Chr08:47436819-47438609 (-)

Description Similar to PUB9: U-box domain-containing protein 9

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g07360`	Functions as an E3 ubiquitin ligase (By similarity).	Interactions between the S-domain receptor kinases and AtPUB-ARM E3 ubiquitin ligases suggest a conserved signaling pathway in Arabidopsis.2008 · DOI: 10.1104/pp.108.123380
`At5g18320`	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
`At3g54850`	Functions as an E3 ubiquitin ligase with specific E2 ubiquitin-conjugating enzymes.	Structure and biochemical function of a prototypical Arabidopsis U-box domain.2004 · DOI: 10.1074/jbc.m405057200

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_036733 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009738 abscisic acid-activated signaling pathway Biological Process

GO:0016567 protein ubiquitination Biological Process

GO:0042631 cellular response to water deprivation Biological Process

GO:0048527 lateral root development Biological Process

GO:0051865 protein autoubiquitination Biological Process

GO:0071215 cellular response to abscisic acid stimulus Biological Process

GO:0090333 regulation of stomatal closure Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0004842 ubiquitin-protein transferase activity Molecular Function

GO:0061630 ubiquitin protein ligase activity Molecular Function

KEGG gene cross-reference

ath:AT1G23030

ath:AT3G07360

ath:AT3G54850

ath:AT5G18320

dosa:Os06g0102700

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.

Cytoplasm0.546

Rank 1 · LXL04_036733 · OH-1004

Nucleus0.380

Rank 2 · LXL04_036733 · OH-1004

Cell membrane0.194

Rank 3 · LXL04_036733 · OH-1004

Endoplasmic reticulum0.053

Rank 4 · LXL04_036733 · OH-1004

Mitochondrion0.045

Rank 5 · LXL04_036733 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

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Predicted Functional Domains

Domain results are from Pfam-A/HMMER; positions are amino-acid coordinates on the protein sequence.

PF04564.22U-box113-181 aa

PF25598.2ARM_PUB209-382 aa

PF00514.30Arm327-363 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_036733	`PF04564.22`	U-box	113	181	1.4e-20	73.9
LXL04_036733	`PF25598.2`	ARM_PUB	209	382	1.8e-14	54.6
LXL04_036733	`PF00514.30`	Arm	327	363	3.7e-13	49.7

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
`Q9SRT0`	Arabidopsis thaliana	U-box domain-containing protein 9	56.432%	Swiss-Prot	strong database homology
`Q3E9F7`	Arabidopsis thaliana	Putative U-box domain-containing protein 46	38.841%	Swiss-Prot	moderate database homology
`Q8GUG9`	Arabidopsis thaliana	U-box domain-containing protein 11	40.547%	Swiss-Prot	moderate database homology
`Q8VZ40`	Arabidopsis thaliana	U-box domain-containing protein 14	37.938%	Swiss-Prot	moderate database homology
`Q5VRH9`	Oryza sativa subsp. japonica	U-box domain-containing protein 12	40.714%	Swiss-Prot	moderate database homology

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