LXL04_025894 | RubberDandelionOmics

Gene overview

LXL04_025894

Reference: OH-1004 Chr: Chr05 Coordinates: 118281160-118288425 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

3687 bp · LXL04_025894|LXL04_025894|OH1004|cDNA

ATGGCTGATATAGGAAATCGAAGGATTGAAGTCTACTGCAGAGGAATGTTCTACCACAAGCCGTTCATGTATTTCGATCCAAGGATTTTTAACATTGAAGGGGTTGATTTCCGATCAATGTCATTTCCTGAGTTCAAGGTATTCCTACACAAGACAACTGACCGCAACTCTCCCCATATCTACTTCTGCCCACATGAGGAAAGATTGGCTGTAGGACTACATTCCCTTCAAAATGAGTGTGATTACAATGAGTTCCTTGA...

CDS

Download CDS FASTA

3666 bp · LXL04_025894|LXL04_025894|OH1004|CDS

ATGGCTGATATAGGAAATCGAAGGATTGAAGTCTACTGCAGAGGAATGTTCTACCACAAGCCGTTCATGTATTTCGATCCAAGGATTTTTAACATTGAAGGGGTTGATTTCCGATCAATGTCATTTCCTGAGTTCAAGGTATTCCTACACAAGACAACTGACCGCAACTCTCCCCATATCTACTTCTGCCCACATGAGGAAAGATTGGCTGTAGGACTACATTCCCTTCAAAATGAGTGTGATTACAATGAGTTCCTTGA...

Protein

Download Protein FASTA

1221 aa · LXL04_025894|LXL04_025894|OH1004|PROTEIN

MADIGNRRIEVYCRGMFYHKPFMYFDPRIFNIEGVDFRSMSFPEFKVFLHKTTDRNSPHIYFCPHEERLAVGLHSLQNECDYNEFLECAYEEQRSVDIYIDDIGEPVFEWIQMEEPEEEEETYVYEEDIDSELSDIEQPDFEPEDEDVEIRCRRRVNDHFLNKLCPVEYDGIVEEEQGDPRPIWPVHDTSAEWDKMSPELGMKFANPSDLKSCLNNYAVHHGYALWYQKNDKDKLLVRCCKDKIPECPFRLWASWMKNEK...

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_025894`
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_025894

Location Chr05:118281160-118288425 (+)

Description Similar to At5g37930: E3 ubiquitin-protein ligase SINA-like 10

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g37930`	E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins.	No verified direct reference in this release
`At5g37890`	E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins.	No verified direct reference in this release
`At5g37870`	E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins.	No verified direct reference in this release
`At5g37910`	E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins.	No verified direct reference in this release
`At1g66620`	E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins.	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_025894 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009411 response to UV Biological Process

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:AT1G66620

ath:AT5G37870

ath:AT5G37890

ath:AT5G37910

ath:AT5G37930

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.

Nucleus0.937

Rank 1 · LXL04_025894 · OH-1004

Cytoplasm0.106

Rank 2 · LXL04_025894 · OH-1004

Cell membrane0.028

Rank 3 · LXL04_025894 · OH-1004

Endoplasmic reticulum0.019

Rank 4 · LXL04_025894 · OH-1004

Mitochondrion0.014

Rank 5 · LXL04_025894 · 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.

PF03108.21DBD_Tnp_Mut200-264 aa

PF10551.16MULE430-463 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_025894	`PF03108.21`	DBD_Tnp_Mut	200	264	9.6e-10	38.7
LXL04_025894	`PF10551.16`	MULE	430	463	3.6e-06	28.0

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
`Q84K34`	Arabidopsis thaliana	E3 ubiquitin-protein ligase SINA-like 10	50.000%	Swiss-Prot	weak database homology
`Q9FKD7`	Arabidopsis thaliana	E3 ubiquitin-protein ligase SINA-like 7	43.860%	Swiss-Prot	weak database homology
`Q9FKD9`	Arabidopsis thaliana	Putative E3 ubiquitin-protein ligase SINA-like 6	46.939%	Swiss-Prot	weak database homology
`Q9FKD5`	Arabidopsis thaliana	Putative E3 ubiquitin-protein ligase SINA-like 9	47.059%	Swiss-Prot	weak database homology
`Q9C6H3`	Arabidopsis thaliana	E3 ubiquitin-protein ligase SINA-like 2	50.000%	Swiss-Prot	weak database homology

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