LXL04_028493 | RubberDandelionOmics

Gene overview

LXL04_028493

Reference: OH-1004 Chr: Chr06 Coordinates: 43571153-43580674 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2766 bp · LXL04_028493|LXL04_028493|OH1004|cDNA

ATGGAGTACATGGAtttgttcaatggtcttcatCCCAACAGTTCATGTGCATTTGGATTCACATTAAACAATGAGTTTTTTCTTGAACATGCTGGTTATATGGTCTTGTATGATCCATTTGCAAACAAGGAGAAAATCTTGGATGATAAAATAGTGGAGTATGTGGAAAGTCTTGTTTGGGTAGCACCTGTGATGAGAATTGAAAAGATGAAGAAGTTATATACCAAATTCTCCCTACAAATTTCCCAACTAGCACAGAT...

CDS

Download CDS FASTA

2766 bp · LXL04_028493|LXL04_028493|OH1004|CDS

ATGGAGTACATGGATTTGTTCAATGGTCTTCATCCCAACAGTTCATGTGCATTTGGATTCACATTAAACAATGAGTTTTTTCTTGAACATGCTGGTTATATGGTCTTGTATGATCCATTTGCAAACAAGGAGAAAATCTTGGATGATAAAATAGTGGAGTATGTGGAAAGTCTTGTTTGGGTAGCACCTGTGATGAGAATTGAAAAGATGAAGAAGTTATATACCAAATTCTCCCTACAAATTTCCCAACTAGCACAGAT...

Protein

Download Protein FASTA

921 aa · LXL04_028493|LXL04_028493|OH1004|PROTEIN

MEYMDLFNGLHPNSSCAFGFTLNNEFFLEHAGYMVLYDPFANKEKILDDKIVEYVESLVWVAPVMRIEKMKKLYTKFSLQISQLAQIKSPISYSIPFFYTLFQFHVLIAFLLMANAEDEISPYASGGAGEKLCKMPFRPEIYEEAQNVSHEAGRDISCLSSHQCGNFATFGKSELEEMLKQMTFTRSEAHHFISLLHSRTIEEEKSPTPVSRLEASISSGSLKRHKHGDESHNFREEEIASPADLANVFKGSSSTICRQV...

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_028493`
Source version	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_028493

Location Chr06:43571153-43580674 (+)

Description Similar to At3g06240: F-box/kelch-repeat protein At3g06240

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g06240`	F-box/kelch-repeat protein At3g06240.	No verified direct reference in this release
`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
`At3g23880`	F-box/kelch-repeat protein At3g23880.	No verified direct reference in this release
`At4g22390`	F-box protein At4g22390.	No verified direct reference in this release
`At4g38870`	Putative F-box protein At4g38870.	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_028493 · 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:0005739 mitochondrion Cellular Component

KEGG gene cross-reference

ath:AT3G06240

ath:AT3G23880

ath:AT4G12560

ath:AT4G22390

ath:AT4G38870

These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.

Open Annotation Module

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.

Cytoplasm0.622

Rank 1 · LXL04_028493 · OH-1004

Nucleus0.416

Rank 2 · LXL04_028493 · OH-1004

Cell membrane0.091

Rank 3 · LXL04_028493 · OH-1004

Endoplasmic reticulum0.067

Rank 4 · LXL04_028493 · OH-1004

Mitochondrion0.040

Rank 5 · LXL04_028493 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

Open Subcellular Module

Predicted Functional Domains

Domain results are from Pfam-A/HMMER; positions are amino-acid coordinates on the protein sequence.

PF12937.13F-box-like285-322 aa

PF00646.39F-box285-323 aa

PF07734.19FBA_1372-618 aa

PF03478.25Beta-prop_KIB1-4378-558 aa

PF08268.18FBA_3379-589 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_028493	`PF12937.13`	F-box-like	285	322	7.1e-11	42.4
LXL04_028493	`PF00646.39`	F-box	285	323	9.1e-09	35.6
LXL04_028493	`PF07734.19`	FBA_1	372	618	1.9e-19	70.6
LXL04_028493	`PF03478.25`	Beta-prop_KIB1-4	378	558	1.5e-06	28.6
LXL04_028493	`PF08268.18`	FBA_3	379	589	2.4e-27	96.5

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
`Q8GXC7`	Arabidopsis thaliana	F-box/kelch-repeat protein At3g06240	29.064%	Swiss-Prot	weak database homology
`Q9SU30`	Arabidopsis thaliana	F-box protein CPR1	26.730%	Swiss-Prot	weak database homology
`Q9LIR8`	Arabidopsis thaliana	F-box/kelch-repeat protein At3g23880	27.697%	Swiss-Prot	weak database homology
`Q9SUY0`	Arabidopsis thaliana	F-box protein At4g22390	24.540%	Swiss-Prot	weak database homology
`Q9T0J4`	Arabidopsis thaliana	Putative F-box protein At4g38870	28.025%	Swiss-Prot	weak database homology

JBrowse

View in Genome Browser

Gene Card