LXL04_024425 | RubberDandelionOmics

Gene overview

LXL04_024425

Reference: OH-1004 Chr: Chr05 Coordinates: 90229671-90230525 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

855 bp · LXL04_024425|LXL04_024425|OH1004|cDNA

ATGAAGAAACAATCTCTCGCTAGCTTCAACGAAGTCATTCAAGAAGACGAAAGGTATGTAAAAATCGCAATGGAAATTGAAGGGCTTGTTCATATTCTAATGAAGTTTTTGAATTCAAAAGACATCGAAATTCAAGAAGAGGCATTAAAATCGGTGGCTACGATTTGTGGGTTTGATTCATACAAGACTGTTCTCGAAGGAACCGGTATCATTTCTTCATTAATCAGAGTCCTGGAGAGTGGAAGCGATTTGGGTAAAGA...

CDS

Download CDS FASTA

855 bp · LXL04_024425|LXL04_024425|OH1004|CDS

ATGAAGAAACAATCTCTCGCTAGCTTCAACGAAGTCATTCAAGAAGACGAAAGGTATGTAAAAATCGCAATGGAAATTGAAGGGCTTGTTCATATTCTAATGAAGTTTTTGAATTCAAAAGACATCGAAATTCAAGAAGAGGCATTAAAATCGGTGGCTACGATTTGTGGGTTTGATTCATACAAGACTGTTCTCGAAGGAACCGGTATCATTTCTTCATTAATCAGAGTCCTGGAGAGTGGAAGCGATTTGGGTAAAGA...

Protein

Download Protein FASTA

284 aa · LXL04_024425|LXL04_024425|OH1004|PROTEIN

MKKQSLASFNEVIQEDERYVKIAMEIEGLVHILMKFLNSKDIEIQEEALKSVATICGFDSYKTVLEGTGIISSLIRVLESGSDLGKELSTRCLMKVTANSDNAWSVSAHGGASALLKICGSGCDDAAGGELVGLACGVLKNLIGVEEIKRFVVDEGAIPMSIKLVKSKNESSQISAIEFIQVLASANEFMRGMIVNEGGIRVLVRVIDPKSSYSSKPCEKSMKALITLCSDSIGYINSLMYFGNLVNASSKFIVEICFFI...

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_024425`
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_024425

Location Chr05:90229671-90230525 (+)

Description Similar to PUB4: U-box domain-containing protein 4

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g23140`	Functions as an E3 ubiquitin ligase.	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_024425 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0016567 protein ubiquitination Biological Process

GO:0034614 cellular response to reactive oxygen species Biological Process

GO:0048364 root development Biological Process

GO:0048658 anther wall tapetum development Biological Process

GO:1904821 chloroplast disassembly Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0061630 ubiquitin protein ligase activity Molecular Function

KEGG gene cross-reference

ath:AT2G23140

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.

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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_024425 · OH-1004

Cytoplasm0.328

Rank 2 · LXL04_024425 · OH-1004

Cell membrane0.070

Rank 3 · LXL04_024425 · OH-1004

Endoplasmic reticulum0.043

Rank 4 · LXL04_024425 · OH-1004

Mitochondrion0.037

Rank 5 · LXL04_024425 · 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.

PF24768.2ARM_ARMC53-118 aa

PF25598.2ARM_PUB97-231 aa

PF24768.2ARM_ARMC599-231 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_024425	`PF24768.2`	ARM_ARMC5	3	118	8.8e-12	45.7
LXL04_024425	`PF25598.2`	ARM_PUB	97	231	2e-07	31.5
LXL04_024425	`PF24768.2`	ARM_ARMC5	99	231	8.8e-12	45.7

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.

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Protein	Organism	Description	Identity	Database	Confidence
`O22193`	Arabidopsis thaliana	U-box domain-containing protein 4	27.650%	Swiss-Prot	weak database homology

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