LXL04_017314 | RubberDandelionOmics

Gene overview

LXL04_017314

Reference: OH-1004 Chr: Chr03 Coordinates: 146301542-146303142 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

765 bp · LXL04_017314|LXL04_017314|OH1004|cDNA

ATGGATTCAGAAGATGATATGCACGACGCGAACGATGCCGAGTCTCTTGATGATGACTTCTACAGTGGGGAGACTGTGATGGACTCCGATGATGGTGATGCAGCGGACTACGAGTTCATCGACGATGATTCCGATGATTCTGATGATCTCCTTTCTCGTCGTAGCCAGCAAAACTACACCATTCTAAATGAATCTGATATTCATCTACGTCAAGAGGATGATATCATGAAGATATCTTCCATACTTTCCATTTCCAGTGT...

CDS

Download CDS FASTA

525 bp · LXL04_017314|LXL04_017314|OH1004|CDS

ATGGATTCAGAAGATGATATGCACGACGCGAACGATGCCGAGTCTCTTGATGATGACTTCTACAGTGGGGAGACTGTGATGGACTCCGATGATGGTGATGCAGCGGACTACGAGTTCATCGACGATGATTCCGATGATTCTGATGATCTCCTTTCTCGTCGTAGCCAGCAAAACTACACCATTCTAAATGAATCTGATATTCATCTACGTCAAGAGGATGATATCATGAAGATATCTTCCATACTTTCCATTTCCAGTGT...

Protein

Download Protein FASTA

174 aa · LXL04_017314|LXL04_017314|OH1004|PROTEIN

MDSEDDMHDANDAESLDDDFYSGETVMDSDDGDAADYEFIDDDSDDSDDLLSRRSQQNYTILNESDIHLRQEDDIMKISSILSISSVAAAILLRHYNWSVSKVNDEWFADEEKVRRVVGLLEDPRALPNVKESTCGICFEVYSSDSMRSAACGHPFCVTCWQGYISTSINDGPG

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_017314`
TK1151 ID	TkA02G054920
OH-1004 ID	LXL04_017314
Relationship / confidence	Multi Candidate From Tk1151 / Complex relationship
Protein identity (%)	100.000
Protein coverage (%)	TK1151 98.193 / OH-1004 93.678 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_017314

Location Chr03:146301542-146303142 (+)

Description Similar to ARI7: Probable E3 ubiquitin-protein ligase ARI7

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g31510`	Might act as an E3 ubiquitin-protein ligase, or as part of E3 complex, which accepts ubiquitin from specific E2 ubiquitin-conjugating enzymes and then transfers it to substrates.	No verified direct reference in this release
`At1g65430`	Might act as an E3 ubiquitin-protein ligase, or as part of E3 complex, which accepts ubiquitin from specific E2 ubiquitin-conjugating enzymes and then transfers it to substrates.	No verified direct reference in this release
`At1g05890`	Might act as an E3 ubiquitin-protein ligase, or as part of E3 complex, which accepts ubiquitin from specific E2 ubiquitin-conjugating enzymes and then transfers it to substrates.	No verified direct reference in this release
`At1g63760`	Might act as an E3 ubiquitin-protein ligase, or as part of E3 complex, which accepts ubiquitin from specific E2 ubiquitin-conjugating enzymes and then transfers it to substrates.	No verified direct reference in this release
`At2g31780`	Might act as an E3 ubiquitin-protein ligase, or as part of E3 complex, which accepts ubiquitin from specific E2 ubiquitin-conjugating enzymes and then transfers it to substrates.	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_017314 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006511 ubiquitin-dependent protein catabolic process Biological Process

GO:0016567 protein ubiquitination Biological Process

GO:0000151 ubiquitin ligase complex Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0004842 ubiquitin-protein transferase activity Molecular Function

GO:0008270 zinc ion binding Molecular Function

GO:0031624 ubiquitin conjugating enzyme binding Molecular Function

GO:0061630 ubiquitin protein ligase activity Molecular Function

KEGG gene cross-reference

ath:AT1G05890

ath:AT1G65430

ath:AT2G31510

ath:AT2G31780

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.

Nucleus0.732

Rank 1 · LXL04_017314 · OH-1004

Cytoplasm0.452

Rank 2 · LXL04_017314 · OH-1004

Mitochondrion0.030

Rank 3 · LXL04_017314 · OH-1004

Cell membrane0.027

Rank 4 · LXL04_017314 · OH-1004

Endoplasmic reticulum0.023

Rank 5 · LXL04_017314 · 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.

PF21235.5UBA_ARI171-108 aa

PF13923.13zf-C3HC4_2135-165 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_017314	`PF21235.5`	UBA_ARI1	71	108	2.6e-10	40.6
LXL04_017314	`PF13923.13`	zf-C3HC4_2	135	165	4.5e-06	27.1

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
`Q84RR0`	Arabidopsis thaliana	Probable E3 ubiquitin-protein ligase ARI7	57.062%	Swiss-Prot	strong database homology
`Q8W468`	Arabidopsis thaliana	Probable E3 ubiquitin-protein ligase ARI8	62.805%	Swiss-Prot	strong database homology
`Q8L829`	Arabidopsis thaliana	Probable E3 ubiquitin-protein ligase ARI5	56.051%	Swiss-Prot	strong database homology
`P0C8K8`	Arabidopsis thaliana	Putative E3 ubiquitin-protein ligase ARI6	56.970%	Swiss-Prot	strong database homology
`Q9SKC2`	Arabidopsis thaliana	Probable E3 ubiquitin-protein ligase ARI11	44.253%	Swiss-Prot	moderate database homology

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