LXL04_018847 | RubberDandelionOmics

Gene overview

LXL04_018847

Reference: OH-1004 Chr: Chr04 Coordinates: 19113306-19116631 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1815 bp · LXL04_018847|LXL04_018847|OH1004|cDNA

ATGGATTCATTGAACGCTATACTCGATATGTCGAAAGAGGAGCTTGAAGCATTTTTAAATGATCCAAATAGCGATACCACAAATGTTCGGGGTCTAGTCAAACTCCTTTCTGAAATCATACATACTTTCATTCTTACTGCTATCATAAAGATCACTCAAAAAGGGTACACCGACGAAGAAGCTAAGCACGCGATTTTACGATGTGGTCCCTTCCATAGCACCGAAGGGAACCAGCTGGAGTCAAATTTCGTTGAACGTGC...

CDS

Download CDS FASTA

1815 bp · LXL04_018847|LXL04_018847|OH1004|CDS

ATGGATTCATTGAACGCTATACTCGATATGTCGAAAGAGGAGCTTGAAGCATTTTTAAATGATCCAAATAGCGATACCACAAATGTTCGGGGTCTAGTCAAACTCCTTTCTGAAATCATACATACTTTCATTCTTACTGCTATCATAAAGATCACTCAAAAAGGGTACACCGACGAAGAAGCTAAGCACGCGATTTTACGATGTGGTCCCTTCCATAGCACCGAAGGGAACCAGCTGGAGTCAAATTTCGTTGAACGTGC...

Protein

Download Protein FASTA

604 aa · LXL04_018847|LXL04_018847|OH1004|PROTEIN

MDSLNAILDMSKEELEAFLNDPNSDTTNVRGLVKLLSEIIHTFILTAIIKITQKGYTDEEAKHAILRCGPFHSTEGNQLESNFVERALISLESNKKDDDSSNYAFQDINELVDFMILEMVTTVRDMKPAVTSPISVTEAVWSLLMCDLDVRQASSQSESKNKKALASDCEIRAHLKMKTCSQNSKSGKETEDACDCECKKWCAMATSKRDAALRQKVVQIFEKKYKGRGKGMKKKFSSLKDLCLDDKQSPSSSSEQNKNI...

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_018847`
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_018847

Location Chr04:19113306-19116631 (+)

Description Similar to RF298: Putative E3 ubiquitin-protein ligase RF298

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g03000`	Putative E3 ubiquitin-protein ligase RF298.	No verified direct reference in this release
`At1g03365`	Putative E3 ubiquitin-protein ligase RF4.	No verified direct reference in this release
`At1g32530`	MND1-interacting protein 1.	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_018847 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0016567 protein ubiquitination Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0008270 zinc ion binding Molecular Function

GO:0061630 ubiquitin protein ligase activity Molecular Function

KEGG gene cross-reference

ath:AT1G03365

ath:AT1G32530

ath:AT4G03000

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.

Cytoplasm0.475

Rank 1 · LXL04_018847 · OH-1004

Nucleus0.463

Rank 2 · LXL04_018847 · OH-1004

Cell membrane0.094

Rank 3 · LXL04_018847 · OH-1004

Endoplasmic reticulum0.041

Rank 4 · LXL04_018847 · OH-1004

Mitochondrion0.029

Rank 5 · LXL04_018847 · 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.

PF13920.13zf-C3HC4_3549-595 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_018847	`PF13920.13`	zf-C3HC4_3	549	595	3.8e-12	46.5

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
`Q0WPJ7`	Arabidopsis thaliana	Putative E3 ubiquitin-protein ligase RF298	36.415%	Swiss-Prot	moderate database homology
`Q9ZVT8`	Arabidopsis thaliana	Putative E3 ubiquitin-protein ligase RF4	37.313%	Swiss-Prot	moderate database homology
`Q8RX22`	Arabidopsis thaliana	MND1-interacting protein 1	21.609%	Swiss-Prot	weak database homology

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