LXL04_006562 | RubberDandelionOmics

Gene overview

LXL04_006562

Reference: OH-1004 Chr: Chr02 Coordinates: 13469043-13477799 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

3498 bp · LXL04_006562|LXL04_006562|OH1004|cDNA

atggttgctcgctacaaccccgaccctcgaaagtcattaagtgaaaagtattctgaccactacactatcactgcgtctggagaaacATGTGAACGTGGAAGAAGAAACCAAGAGTCGGAAGATGATTTCATTGAATCGGAAGAAGTTAGCCGTAATACCGAAGTGCCAAATGAGGAAACTTCACCAAGTTTCCGGTGCAATAAGTGGAAACGTCGAAACGATGATGGTTTCAACAATGCGGTTGGCTTGATTACCGAAAG...

CDS

Download CDS FASTA

3498 bp · LXL04_006562|LXL04_006562|OH1004|CDS

ATGGTTGCTCGCTACAACCCCGACCCTCGAAAGTCATTAAGTGAAAAGTATTCTGACCACTACACTATCACTGCGTCTGGAGAAACATGTGAACGTGGAAGAAGAAACCAAGAGTCGGAAGATGATTTCATTGAATCGGAAGAAGTTAGCCGTAATACCGAAGTGCCAAATGAGGAAACTTCACCAAGTTTCCGGTGCAATAAGTGGAAACGTCGAAACGATGATGGTTTCAACAATGCGGTTGGCTTGATTACCGAAAG...

Protein

Download Protein FASTA

1165 aa · LXL04_006562|LXL04_006562|OH1004|PROTEIN

MVARYNPDPRKSLSEKYSDHYTITASGETCERGRRNQESEDDFIESEEVSRNTEVPNEETSPSFRCNKWKRRNDDGFNNAVGLITESLKEISKDLSQGIKFDMKINELSEKIPPEILKMTSLSQLEKFKALTKIRSDPIHVQNFWQIEEGDQEIMATITAKPQRSPEEIEDIILRKIFLVTLIDSMGNDTRVVYLEMTAAEILSEGGELRLSRDLMERVLVDRLSGNFTSAEPPFQYLVGIYRRAYEEGKKIANMKDKSV...

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_006562`
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_006562

Location Chr02:13469043-13477799 (+)

Description Similar to PUB1: Probable ubiquitin conjugation factor E4

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g15400`	Ubiquitin-protein ligase that may function as an E3 ligase in conjunction with specific E1 and E2 ligases.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

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Functional annotation source: OH1004 · LXL04_006562 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000209 protein polyubiquitination Biological Process

GO:0006457 protein folding Biological Process

GO:0006511 ubiquitin-dependent protein catabolic process Biological Process

GO:0006513 protein monoubiquitination Biological Process

GO:0009411 response to UV Biological Process

GO:0016567 protein ubiquitination Biological Process

GO:0030163 protein catabolic process Biological Process

GO:0034976 response to endoplasmic reticulum stress Biological Process

GO:0036503 ERAD pathway Biological Process

GO:0043161 proteasome-mediated ubiquitin-dependent protein catabolic process Biological Process

GO:0051865 protein autoubiquitination Biological Process

GO:0000151 ubiquitin ligase complex Cellular Component

KEGG gene cross-reference

ath:AT5G15400

hsa:10277

hsa:9354

mmu:63958

spo:2542023

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.

Nucleus0.834

Rank 1 · LXL04_006562 · OH-1004

Cytoplasm0.327

Rank 2 · LXL04_006562 · OH-1004

Mitochondrion0.028

Rank 3 · LXL04_006562 · OH-1004

Cell membrane0.026

Rank 4 · LXL04_006562 · OH-1004

Endoplasmic reticulum0.020

Rank 5 · LXL04_006562 · 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.

PF10408.15Ufd2P_core412-1041 aa

PF04564.22U-box1058-1129 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_006562	`PF10408.15`	Ufd2P_core	412	1041	4.1e-201	670.4
LXL04_006562	`PF04564.22`	U-box	1058	1129	2.4e-30	105.2

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.

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Protein	Organism	Description	Identity	Database	Confidence
`Q9LF41`	Arabidopsis thaliana	Probable ubiquitin conjugation factor E4	73.183%	Swiss-Prot	strong database homology

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