LXL04_002262 | RubberDandelionOmics

Gene overview

LXL04_002262

Reference: OH-1004 Chr: Chr01 Coordinates: 44786372-44788836 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1230 bp · LXL04_002262|LXL04_002262|OH1004|cDNA

ATGGTGGAGGCGGACGATGACAGGTCTACTTACGCAAGCAGCGGACCCGGAGAAAATTTCCCAGAGATCTATGAAGAACTACCCCAAGATGTTTCTCATGAGGCTGTACGAAATGTGGTTCTTGAAGAGGAGAGTGCTTCACCACAACACCCAGCAAGTATGGAGAATCTCCCGGAGGAGCTTTTATCAAACATATTCATCCGTTTATTGGCCAAACAACTTGCTCAAATGAGGTCTGTTTCCAAATCTTGGAATGCCCT...

CDS

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1230 bp · LXL04_002262|LXL04_002262|OH1004|CDS

ATGGTGGAGGCGGACGATGACAGGTCTACTTACGCAAGCAGCGGACCCGGAGAAAATTTCCCAGAGATCTATGAAGAACTACCCCAAGATGTTTCTCATGAGGCTGTACGAAATGTGGTTCTTGAAGAGGAGAGTGCTTCACCACAACACCCAGCAAGTATGGAGAATCTCCCGGAGGAGCTTTTATCAAACATATTCATCCGTTTATTGGCCAAACAACTTGCTCAAATGAGGTCTGTTTCCAAATCTTGGAATGCCCT...

Protein

Download Protein FASTA

409 aa · LXL04_002262|LXL04_002262|OH1004|PROTEIN

MVEADDDRSTYASSGPGENFPEIYEELPQDVSHEAVRNVVLEEESASPQHPASMENLPEELLSNIFIRLLAKQLAQMRSVSKSWNALLSHSSFIKSHLHHSIHNNDQVLLLFHYKGKYAYESKLFTAKPTQSPDLELADFIKLPPAESKYTRGIRIIGSVNGLICSSNKTNIWNPSLSAVLTLPPYSIPRDDDGRIKIFFRFGYDPKTDDYKVVKLTRPTKYADKWYPQVEIYSMRKGSWELITERFPTHITNMKDCECV...

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_002262`
TK1151 ID	TkA01G443010
OH-1004 ID	LXL04_002262
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.500
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_002262

Location Chr01:44786372-44788836 (-)

Description Similar to CPR1: F-box protein CPR1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g12560`	Component of SCF(ASK-cullin-F-box) E3 ubiquitin ligase complexes, which may mediate the ubiquitination and subsequent proteasomal degradation of target proteins (By similarity).	An F-box gene, CPR30, functions as a negative regulator of the defense response in Arabidopsis.2009 · DOI: 10.1111/j.1365-313x.2009.03995.x
`At4g22390`	F-box protein At4g22390.	No verified direct reference in this release
`At2g21930`	F-box protein At2g21930.	No verified direct reference in this release
`At3g06240`	F-box/kelch-repeat protein At3g06240.	No verified direct reference in this release
`At4g09190`	Putative F-box protein At4g09190.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

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Functional annotation source: OH1004 · LXL04_002262 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009626 plant-type hypersensitive response Biological Process

GO:0016567 protein ubiquitination Biological Process

GO:0031348 negative regulation of defense response Biological Process

GO:0042177 negative regulation of protein catabolic process Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0009506 plasmodesma Cellular Component

GO:0009507 chloroplast Cellular Component

KEGG gene cross-reference

ath:AT2G21930

ath:AT3G06240

ath:AT4G09190

ath:AT4G12560

ath:AT4G22390

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.

Cytoplasm0.560

Rank 1 · LXL04_002262 · OH-1004

Nucleus0.417

Rank 2 · LXL04_002262 · OH-1004

Cell membrane0.150

Rank 3 · LXL04_002262 · OH-1004

Endoplasmic reticulum0.072

Rank 4 · LXL04_002262 · OH-1004

Lysosome / Vacuole0.040

Rank 5 · LXL04_002262 · 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.

PF12937.13F-box-like55-92 aa

PF00646.39F-box55-93 aa

PF08268.18FBA_3124-386 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_002262	`PF12937.13`	F-box-like	55	92	6.1e-08	33.0
LXL04_002262	`PF00646.39`	F-box	55	93	1.9e-07	31.4
LXL04_002262	`PF08268.18`	FBA_3	124	386	2.4e-30	106.4

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q9SU30`	Arabidopsis thaliana	F-box protein CPR1	26.954%	Swiss-Prot	weak database homology
`Q9SUY0`	Arabidopsis thaliana	F-box protein At4g22390	27.476%	Swiss-Prot	weak database homology
`Q9SJ06`	Arabidopsis thaliana	F-box protein At2g21930	26.846%	Swiss-Prot	weak database homology
`Q8GXC7`	Arabidopsis thaliana	F-box/kelch-repeat protein At3g06240	25.789%	Swiss-Prot	weak database homology
`Q9M0Q9`	Arabidopsis thaliana	Putative F-box protein At4g09190	25.956%	Swiss-Prot	weak database homology

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