LXL04_005562 | RubberDandelionOmics

Gene overview

LXL04_005562

Reference: OH-1004 Chr: Chr01 Coordinates: 168420791-168422209 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1419 bp · LXL04_005562|LXL04_005562|OH1004|cDNA

ATGCCTCCTTTTTCACAATCGGGCCCTCTCTCTGTTCCATTTTCCCACGAGAATCACAAATTCGACAAGCCCAGCAACCTCTCGTCCACCAATGTCGTCACCATTGACGTCGGCGGCCAGCTCTTTCAAACCACGAAACAAACCCTAACTCTAGCTGGCTCCAACACCCTGTTCTCCAATATCTTCACGACTTACGATCAAATTCCGTTTATCGACAGAGACCCTGATCTTTTCTCAATTCTTCTTTCCGTTTTGAGAAC...

CDS

Download CDS FASTA

1419 bp · LXL04_005562|LXL04_005562|OH1004|CDS

ATGCCTCCTTTTTCACAATCGGGCCCTCTCTCTGTTCCATTTTCCCACGAGAATCACAAATTCGACAAGCCCAGCAACCTCTCGTCCACCAATGTCGTCACCATTGACGTCGGCGGCCAGCTCTTTCAAACCACGAAACAAACCCTAACTCTAGCTGGCTCCAACACCCTGTTCTCCAATATCTTCACGACTTACGATCAAATTCCGTTTATCGACAGAGACCCTGATCTTTTCTCAATTCTTCTTTCCGTTTTGAGAAC...

Protein

Download Protein FASTA

472 aa · LXL04_005562|LXL04_005562|OH1004|PROTEIN

MPPFSQSGPLSVPFSHENHKFDKPSNLSSTNVVTIDVGGQLFQTTKQTLTLAGSNTLFSNIFTTYDQIPFIDRDPDLFSILLSVLRTGNFPSKAKAFDIQDIISEAKFYGIDHLVVQSHSNPSQFDAFNLEKSTILPLSGRDSPSVVATSPYGLVNVAHGSKITSFDWSLRGKSTILTPFTAIDSLLSLSSNVVAAGATDFSGLQIININKGSVVQSLNWENITRSSSTVQAIGTSPDFLFTSFESGRRNSNSIMVYDIN...

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_005562`
TK1151 ID	TkA01G034220
OH-1004 ID	LXL04_005562
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	100.000
Protein coverage (%)	TK1151 100.000 / OH-1004 100.000 Coverage and evidence Coverage is the aligned span of the best-scoring HSP divided by representative protein length. A homolog match does not establish functional validation.
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_005562

Location Chr01:168420791-168422209 (+)

Description Similar to At5g41330: BTB/POZ domain-containing protein At5g41330

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g41330`	May act as a substrate-specific adapter of an E3 ubiquitin-protein ligase complex (CUL3-RBX1-BTB) which mediates the ubiquitination and subsequent proteasomal degradation of target proteins.	No verified direct reference in this release
`At3g09030`	May act as a substrate-specific adapter of an E3 ubiquitin-protein ligase complex (CUL3-RBX1-BTB) which mediates the ubiquitination and subsequent proteasomal degradation of target proteins (By similarity).	Arabidopsis BTB/POZ protein-dependent PENETRATION3 trafficking and disease susceptibility.2017 · DOI: 10.1038/s41477-017-0039-z
`At2g24240`	May act as a substrate-specific adapter of an E3 ubiquitin-protein ligase complex (CUL3-RBX1-BTB) which mediates the ubiquitination and subsequent proteasomal degradation of target proteins.	No verified direct reference in this release
`At4g30940`	May act as a substrate-specific adapter of an E3 ubiquitin-protein ligase complex (CUL3-RBX1-BTB) which mediates the 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_005562 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006511 ubiquitin-dependent protein catabolic process Biological Process

GO:0006886 intracellular protein transport Biological Process

GO:0009737 response to abscisic acid Biological Process

GO:0016567 protein ubiquitination Biological Process

GO:0035024 negative regulation of Rho protein signal transduction Biological Process

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

GO:0050832 defense response to fungus Biological Process

GO:0051260 protein homooligomerization Biological Process

GO:0005634 nucleus Cellular Component

GO:0005654 nucleoplasm Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005829 cytosol Cellular Component

KEGG gene cross-reference

ath:AT2G24240

ath:AT3G09030

ath:AT4G30940

ath:AT5G41330

hsa:83892

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.

Nucleus0.541

Rank 1 · LXL04_005562 · OH-1004

Cytoplasm0.439

Rank 2 · LXL04_005562 · OH-1004

Mitochondrion0.058

Rank 3 · LXL04_005562 · OH-1004

Peroxisome0.037

Rank 4 · LXL04_005562 · OH-1004

Cell membrane0.033

Rank 5 · LXL04_005562 · 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.

PF02214.29BTB_233-117 aa

PF25279.1Beta_prop_At2g24240145-466 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_005562	`PF02214.29`	BTB_2	33	117	6.9e-12	46.3
LXL04_005562	`PF25279.1`	Beta_prop_At2g24240	145	466	3e-18	66.5

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q9FN67`	Arabidopsis thaliana	BTB/POZ domain-containing protein At5g41330	59.430%	Swiss-Prot	strong database homology
`Q9S7R7`	Arabidopsis thaliana	Protein ENDOPLASMIC RETICULUM-ARRESTED PEN3	30.396%	Swiss-Prot	moderate database homology
`Q9ZUH1`	Arabidopsis thaliana	BTB/POZ domain-containing protein At2g24240	24.895%	Swiss-Prot	weak database homology
`O65555`	Arabidopsis thaliana	BTB/POZ domain-containing protein At4g30940	26.170%	Swiss-Prot	weak database homology

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