LXL04_012565 | RubberDandelionOmics

Gene overview

LXL04_012565

Reference: OH-1004 Chr: Chr03 Coordinates: 14712320-14714965 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1905 bp · LXL04_012565|LXL04_012565|OH1004|cDNA

ATGGCGATGGCGTGCATGAAGTTAGGATCTAAATCAGAGGTTTTTCATTTCGATCAGGACGCAAAATCCTGGACCTGTTCTTCTGGCCTTCCTAGTGATATTACCATTGAAGTTGGAGACATTTCATTCCATCTTCACAAGTTCCCGTTATTATCTAGAAGCAAAACACTGGAAAATCTCATTGGGGATTTTTCCGATGATGAAAGAAAGACAAACTTTGGAGATGAAAAACGATCTTGTGTTCTTCAACTTCATGATCT...

CDS

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1905 bp · LXL04_012565|LXL04_012565|OH1004|CDS

ATGGCGATGGCGTGCATGAAGTTAGGATCTAAATCAGAGGTTTTTCATTTCGATCAGGACGCAAAATCCTGGACCTGTTCTTCTGGCCTTCCTAGTGATATTACCATTGAAGTTGGAGACATTTCATTCCATCTTCACAAGTTCCCGTTATTATCTAGAAGCAAAACACTGGAAAATCTCATTGGGGATTTTTCCGATGATGAAAGAAAGACAAACTTTGGAGATGAAAAACGATCTTGTGTTCTTCAACTTCATGATCT...

Protein

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634 aa · LXL04_012565|LXL04_012565|OH1004|PROTEIN

MAMACMKLGSKSEVFHFDQDAKSWTCSSGLPSDITIEVGDISFHLHKFPLLSRSKTLENLIGDFSDDERKTNFGDEKRSCVLQLHDLPGGPKIFLLVAKFCYGVKLELNSNNVVHLRSASEYLQMTEEYGDENLIHHTETFLGEVFDSWIDTLKALESCEEVVEYAEDLQIVSRCIDSLALKACSSDKDLFGWPVSTSSMRENPFATVIWNGIQASSPNQDWWYEDVSRLTLPIYRRFILAVESKSLDQERLAGSLMCYA...

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_012565`
TK1151 ID	TkA02G552980
OH-1004 ID	LXL04_012565
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.700
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_012565

Location Chr03:14712320-14714965 (+)

Description Similar to At5g03250: BTB/POZ domain-containing protein At5g03250

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g03250`	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
`At1g30440`	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
`At5g13600`	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
`At3g44820`	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
`At5g66560`	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_012565 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0016567 protein ubiquitination Biological Process

GO:0005634 nucleus Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0009507 chloroplast Cellular Component

KEGG gene cross-reference

ath:AT1G30440

ath:AT3G44820

ath:AT5G03250

ath:AT5G13600

ath:AT5G66560

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.

Nucleus0.526

Rank 1 · LXL04_012565 · OH-1004

Cytoplasm0.343

Rank 2 · LXL04_012565 · OH-1004

Cell membrane0.159

Rank 3 · LXL04_012565 · OH-1004

Endoplasmic reticulum0.053

Rank 4 · LXL04_012565 · OH-1004

Plastid0.040

Rank 5 · LXL04_012565 · 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.

PF00651.38BTB29-126 aa

PF03000.20NPH3221-488 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_012565	`PF00651.38`	BTB	29	126	6.5e-07	30.2
LXL04_012565	`PF03000.20`	NPH3	221	488	5.9e-91	305.4

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
`Q9LYW0`	Arabidopsis thaliana	BTB/POZ domain-containing protein At5g03250	52.520%	Swiss-Prot	strong database homology
`Q9S9Q9`	Arabidopsis thaliana	BTB/POZ domain-containing protein At1g30440	50.000%	Swiss-Prot	strong database homology
`Q9FNB3`	Arabidopsis thaliana	Putative BTB/POZ domain-containing protein At5g13600	51.027%	Swiss-Prot	strong database homology
`Q9FYC8`	Arabidopsis thaliana	BTB/POZ domain-containing protein At3g44820	40.765%	Swiss-Prot	moderate database homology
`Q94A73`	Arabidopsis thaliana	BTB/POZ domain-containing protein At5g66560	40.315%	Swiss-Prot	moderate database homology

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