LXL04_011002 | RubberDandelionOmics

Gene overview

LXL04_011002

Reference: OH-1004 Chr: Chr02 Coordinates: 156269283-156270554 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1272 bp · LXL04_011002|LXL04_011002|OH1004|cDNA

ATGGCGGAGAAAGCTAGTAAAGCGATGAGCTTACTGAAGTTAGCAGAAGAACGAGCATCGTTAAGGAAAAAACTCGATGAAGAAAAACATAAGCAACAGTTGGATTCTGTTCCTTATCTTCCGAAAGATTGCGTATCCAATATCCTTATCCGATTGCCTCTTGATTCCCTTCAACGTTCCAGATTCGTTTGCAAGCCATGGTACAACATCATCAACAGTCCCACGTTCGTCCATGACAATCTTCATCGAGCCGAGAAAGT...

CDS

Download CDS FASTA

1272 bp · LXL04_011002|LXL04_011002|OH1004|CDS

ATGGCGGAGAAAGCTAGTAAAGCGATGAGCTTACTGAAGTTAGCAGAAGAACGAGCATCGTTAAGGAAAAAACTCGATGAAGAAAAACATAAGCAACAGTTGGATTCTGTTCCTTATCTTCCGAAAGATTGCGTATCCAATATCCTTATCCGATTGCCTCTTGATTCCCTTCAACGTTCCAGATTCGTTTGCAAGCCATGGTACAACATCATCAACAGTCCCACGTTCGTCCATGACAATCTTCATCGAGCCGAGAAAGT...

Protein

Download Protein FASTA

423 aa · LXL04_011002|LXL04_011002|OH1004|PROTEIN

MAEKASKAMSLLKLAEERASLRKKLDEEKHKQQLDSVPYLPKDCVSNILIRLPLDSLQRSRFVCKPWYNIINSPTFVHDNLHRAEKVFIFLSPVYRISRRFDHDDQGPVFRENPNTFSVEAKIFDLKSVHPLHRPVIDSSSKYAIRYMIFADGKTTIHELNATCLGQIRTACDGLLVIDNKLKKGELVIMNPVTRQLDLLPLGTIYPPHDESFALVKCTNGYKLIHLFRDESQFIGCEVLRIGGKSWKVVDGPAFGLLKW...

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_011002`
TK1151 ID	TkA03G560010
OH-1004 ID	LXL04_011002
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.300
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

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_011002

Location Chr02:156269283-156270554 (-)

Description Similar to At1g12870: Putative F-box/kelch-repeat protein At1g12870

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
`At1g12870`	Putative F-box/kelch-repeat protein At1g12870.	No verified direct reference in this release
`At1g12855`	Putative F-box protein At1g12855.	No verified direct reference in this release
`At3g07870`	F-box protein At3g07870.	No verified direct reference in this release
`At3g17480`	Putative F-box protein At3g17480.	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_011002 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0008284 positive regulation of cell population proliferation Biological Process

GO:0009626 plant-type hypersensitive response Biological Process

GO:0016567 protein ubiquitination Biological Process

GO:0031146 SCF-dependent proteasomal ubiquitin-dependent protein catabolic process Biological Process

GO:0031348 negative regulation of defense response Biological Process

GO:0042177 negative regulation of protein catabolic process Biological Process

GO:0000325 plant-type vacuole Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0009506 plasmodesma Cellular Component

GO:0004842 ubiquitin-protein transferase activity Molecular Function

KEGG gene cross-reference

ath:AT1G12855

ath:AT1G12870

ath:AT3G07870

ath:AT3G17480

ath:AT4G12560

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.

Nucleus0.472

Rank 1 · LXL04_011002 · OH-1004

Cytoplasm0.472

Rank 2 · LXL04_011002 · OH-1004

Cell membrane0.152

Rank 3 · LXL04_011002 · OH-1004

Endoplasmic reticulum0.072

Rank 4 · LXL04_011002 · OH-1004

Lysosome / Vacuole0.033

Rank 5 · LXL04_011002 · 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.

PF00646.39F-box40-76 aa

PF08268.18FBA_3161-393 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_011002	`PF00646.39`	F-box	40	76	1e-07	32.3
LXL04_011002	`PF08268.18`	FBA_3	161	393	2.9e-12	47.0

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	22.589%	Swiss-Prot	weak database homology
`Q9LPW2`	Arabidopsis thaliana	Putative F-box/kelch-repeat protein At1g12870	23.209%	Swiss-Prot	weak database homology
`Q9LPW4`	Arabidopsis thaliana	Putative F-box protein At1g12855	23.810%	Swiss-Prot	weak database homology
`Q9SFC7`	Arabidopsis thaliana	F-box protein At3g07870	22.190%	Swiss-Prot	weak database homology
`Q9LUP9`	Arabidopsis thaliana	Putative F-box protein At3g17480	23.506%	Swiss-Prot	weak database homology

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