LXL04_010032 | RubberDandelionOmics

Gene overview

LXL04_010032

Reference: OH-1004 Chr: Chr02 Coordinates: 138528172-138530971 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2650 bp · LXL04_010032|LXL04_010032|OH1004|cDNA

ATGTCTTCTCCAGACTCTCCGGCCATCGACTCTTTCCACCAGCGAATCAAACGCAAGTTTGAAGATTACGACGACGATAATCTCTCCGACGACTTACCGTCCGTCAGGATGAGAAAGGATGATCCTAACCCTAACTCCCCTTCCGCCACCGCTTCCAGTAATCCCTTCCTCGATCAAATCACTCGTCAACACCCTCACTTTCAAACTAGGGCTTCTACTTCCAGTTCCACCCAAGACTCTGCCTTCTTATGGTATCCTGA...

CDS

Download CDS FASTA

2511 bp · LXL04_010032|LXL04_010032|OH1004|CDS

ATGTCTTCTCCAGACTCTCCGGCCATCGACTCTTTCCACCAGCGAATCAAACGCAAGTTTGAAGATTACGACGACGATAATCTCTCCGACGACTTACCGTCCGTCAGGATGAGAAAGGATGATCCTAACCCTAACTCCCCTTCCGCCACCGCTTCCAGTAATCCCTTCCTCGATCAAATCACTCGTCAACACCCTCACTTTCAAACTAGGGCTTCTACTTCCAGTTCCACCCAAGACTCTGCCTTCTTATGGTATCCTGA...

Protein

Download Protein FASTA

836 aa · LXL04_010032|LXL04_010032|OH1004|PROTEIN

MSSPDSPAIDSFHQRIKRKFEDYDDDNLSDDLPSVRMRKDDPNPNSPSATASSNPFLDQITRQHPHFQTRASTSSSTQDSAFLWYPDRIQFFVRTISEGKTLVFHGKPEDKVKLIHEKIQAATGIPMIEQRLIYRGRQLQWDYTLAECKINNDAGLHLVGRMRSTKHPQAWQLIDDLVSTIYRLCKGETGLCVKSVKSQLTRFLDMTAKYDIGDDQLAPHLNIFQSLCAPAALMMLYMSPHVGNKECAKESIRHLLTSSK...

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_010032`
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_010032

Location Chr02:138528172-138530971 (-)

Description Similar to UPL5: E3 ubiquitin-protein ligase UPL5

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g12570`	E3 ubiquitin protein ligase that regulates leaf senescence through ubiquitination and subsequent degradation of WRKY53.	A HECT E3 ubiquitin ligase negatively regulates Arabidopsis leaf senescence through degradation of the transcription factor WRKY53.2010 · DOI: 10.1111/j.1365-313x.2010.04233.x

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_010032 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000209 protein polyubiquitination Biological Process

GO:0006284 base-excision repair Biological Process

GO:0006511 ubiquitin-dependent protein catabolic process Biological Process

GO:0006513 protein monoubiquitination Biological Process

GO:0007030 Golgi organization Biological Process

GO:0007249 canonical NF-kappaB signal transduction Biological Process

GO:0009753 response to jasmonic acid Biological Process

GO:0010150 leaf senescence Biological Process

GO:0010637 negative regulation of mitochondrial fusion Biological Process

GO:0016567 protein ubiquitination Biological Process

GO:0030154 cell differentiation Biological Process

GO:0031398 positive regulation of protein ubiquitination Biological Process

KEGG gene cross-reference

ath:AT4G12570

hsa:10075

mmu:59026

ncr:NCU08501

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.

Nucleus0.578

Rank 1 · LXL04_010032 · OH-1004

Cytoplasm0.367

Rank 2 · LXL04_010032 · OH-1004

Cell membrane0.080

Rank 3 · LXL04_010032 · OH-1004

Endoplasmic reticulum0.058

Rank 4 · LXL04_010032 · OH-1004

Plastid0.039

Rank 5 · LXL04_010032 · 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.

PF00240.30ubiquitin92-163 aa

PF00632.31HECT570-796 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_010032	`PF00240.30`	ubiquitin	92	163	4.8e-16	59.0
LXL04_010032	`PF00632.31`	HECT	570	796	3.6e-49	168.8

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.

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Protein	Organism	Description	Identity	Database	Confidence
`Q9SU29`	Arabidopsis thaliana	E3 ubiquitin-protein ligase UPL5	47.091%	Swiss-Prot	moderate database homology

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