LXL04_014652 | RubberDandelionOmics

Gene overview

LXL04_014652

Reference: OH-1004 Chr: Chr03 Coordinates: 54378173-54380120 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1212 bp · LXL04_014652|LXL04_014652|OH1004|cDNA

ATGTCGGATACTGAGAAAAACGCCCTTGTTAACTCACCAACGAGCTCCCGGTCGGTCACGGAGACAGTAAACGGCTCTCACCATTTCGTTATACAGGGTTATTCCTTAGCCAAAGGTATGGGAATCGGAAAACACATCGCTAGCGATAATTTTACGGTCGGAGGCTATCAATGGGCTGTATACTTCTACCCCGATGGGAAAAATCCTGAAGACAATTCGACATATGTTTCTGTCTTCATTGCACTTGCCAGCGAGGGCAC...

CDS

Download CDS FASTA

1212 bp · LXL04_014652|LXL04_014652|OH1004|CDS

ATGTCGGATACTGAGAAAAACGCCCTTGTTAACTCACCAACGAGCTCCCGGTCGGTCACGGAGACAGTAAACGGCTCTCACCATTTCGTTATACAGGGTTATTCCTTAGCCAAAGGTATGGGAATCGGAAAACACATCGCTAGCGATAATTTTACGGTCGGAGGCTATCAATGGGCTGTATACTTCTACCCCGATGGGAAAAATCCTGAAGACAATTCGACATATGTTTCTGTCTTCATTGCACTTGCCAGCGAGGGCAC...

Protein

Download Protein FASTA

403 aa · LXL04_014652|LXL04_014652|OH1004|PROTEIN

MSDTEKNALVNSPTSSRSVTETVNGSHHFVIQGYSLAKGMGIGKHIASDNFTVGGYQWAVYFYPDGKNPEDNSTYVSVFIALASEGTDVRALFELTLVDQSGKGKHKIHSHFDRSLESGPYTLKYRGSMWGYKRFYRRALLETSDYLKDDCLRINCTVGVVVSAVDCSSLHSIKVPESDIGSHFGTLLDNKEGSDIIFNVSGQKFHAHKLVLAARSPVFRSRFFKQDEEHEHEIDVTDMEPKVFKAMLHFIYRDAVMEDE...

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_014652`
TK1151 ID	TkA02G406390
OH-1004 ID	LXL04_014652
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_014652

Location Chr03:54378173-54380120 (+)

Description Similar to BPM4: BTB/POZ and MATH domain-containing protein 4

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g03740`	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
`At5g21010`	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
`At3g43700`	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
`At3g06190`	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
`At5g19000`	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_014652 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006970 response to osmotic stress Biological Process

GO:0016567 protein ubiquitination Biological Process

GO:0042631 cellular response to water deprivation Biological Process

GO:0071472 cellular response to salt stress Biological Process

GO:0005634 nucleus Cellular Component

GO:0005829 cytosol Cellular Component

GO:0042802 identical protein binding Molecular Function

KEGG gene cross-reference

ath:AT3G03740

ath:AT3G06190

ath:AT3G43700

ath:AT5G19000

ath:AT5G21010

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.

Nucleus0.642

Rank 1 · LXL04_014652 · OH-1004

Cytoplasm0.415

Rank 2 · LXL04_014652 · OH-1004

Cell membrane0.122

Rank 3 · LXL04_014652 · OH-1004

Endoplasmic reticulum0.050

Rank 4 · LXL04_014652 · OH-1004

Mitochondrion0.026

Rank 5 · LXL04_014652 · 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.

PF22486.3MATH_227-158 aa

PF00651.38BTB186-302 aa

PF24570.2BACK_BPM_SPOP308-359 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_014652	`PF22486.3`	MATH_2	27	158	9.8e-31	107.5
LXL04_014652	`PF00651.38`	BTB	186	302	4.2e-26	92.0
LXL04_014652	`PF24570.2`	BACK_BPM_SPOP	308	359	1.3e-16	61.2

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
`Q9SRV1`	Arabidopsis thaliana	BTB/POZ and MATH domain-containing protein 4	71.500%	Swiss-Prot	strong database homology
`Q1EBV6`	Arabidopsis thaliana	BTB/POZ and MATH domain-containing protein 5	68.182%	Swiss-Prot	strong database homology
`A1L4W5`	Arabidopsis thaliana	BTB/POZ and MATH domain-containing protein 6	66.244%	Swiss-Prot	strong database homology
`Q9M8J9`	Arabidopsis thaliana	BTB/POZ and MATH domain-containing protein 2	58.015%	Swiss-Prot	strong database homology
`Q8L765`	Arabidopsis thaliana	BTB/POZ and MATH domain-containing protein 1	56.053%	Swiss-Prot	strong database homology

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