LXL04_016092 | RubberDandelionOmics

Gene overview

LXL04_016092

Reference: OH-1004 Chr: Chr03 Coordinates: 109285546-109289940 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2970 bp · LXL04_016092|LXL04_016092|OH1004|cDNA

ATGAATTTAATCAGGATCGCGGACCAGAAGAAATCGGAACTCCAAAAGGAAAGAATGCGATCGTCGTCAGAGAACAATCGAGGTTTAAACAGTCGCTTCTTCACTCTTCGTAGCCGCCTTAATACTGCTCTGGCCCTTGGTTTCAGAAAGGATGAAGGAGGAAGGAGATGGTGTTGTACAGATGTGGAGACACAAAGGCATGTTGTTCGCTCCATTGATGCTTTTCTTGATTGTATATCCAGTGACACCTCACATCACCC...

CDS

Download CDS FASTA

2970 bp · LXL04_016092|LXL04_016092|OH1004|CDS

ATGAATTTAATCAGGATCGCGGACCAGAAGAAATCGGAACTCCAAAAGGAAAGAATGCGATCGTCGTCAGAGAACAATCGAGGTTTAAACAGTCGCTTCTTCACTCTTCGTAGCCGCCTTAATACTGCTCTGGCCCTTGGTTTCAGAAAGGATGAAGGAGGAAGGAGATGGTGTTGTACAGATGTGGAGACACAAAGGCATGTTGTTCGCTCCATTGATGCTTTTCTTGATTGTATATCCAGTGACACCTCACATCACCC...

Protein

Download Protein FASTA

989 aa · LXL04_016092|LXL04_016092|OH1004|PROTEIN

MNLIRIADQKKSELQKERMRSSSENNRGLNSRFFTLRSRLNTALALGFRKDEGGRRWCCTDVETQRHVVRSIDAFLDCISSDTSHHPLVKESLADIVPALGTTLVQKNETAMKVASKVFVRMVNVVPTSVLESLVLDIIHPLSSSLSSSHVPVVISCATALNLILSSLSSKKDKQVWKILEETETIHNIIHHINGSNNNKPAEFFLETISLLSKILFRYPSSRFRVWNDARLMEVLDFLIHEPIFSVKAAVLHLNGAKKL...

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_016092`
TK1151 ID	TkA02G192970
OH-1004 ID	LXL04_016092
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.200
Protein coverage (%)	TK1151 98.468 / OH-1004 97.472 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_016092

Location Chr03:109285546-109289940 (+)

Description Similar to At1g04390: BTB/POZ domain-containing protein At1g04390

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g04390`	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_016092 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0016567 protein ubiquitination Biological Process

GO:0009507 chloroplast Cellular Component

KEGG gene cross-reference

ath:AT1G04390

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.

Nucleus0.474

Rank 1 · LXL04_016092 · OH-1004

Cytoplasm0.411

Rank 2 · LXL04_016092 · OH-1004

Cell membrane0.088

Rank 3 · LXL04_016092 · OH-1004

Endoplasmic reticulum0.068

Rank 4 · LXL04_016092 · OH-1004

Mitochondrion0.060

Rank 5 · LXL04_016092 · 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.

PF26522.1ARM_6149-257 aa

PF00651.38BTB806-863 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_016092	`PF26522.1`	ARM_6	149	257	3.5e-37	127.7
LXL04_016092	`PF00651.38`	BTB	806	863	7.6e-13	49.3

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
`P93820`	Arabidopsis thaliana	BTB/POZ domain-containing protein At1g04390	40.020%	Swiss-Prot	moderate database homology

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