LXL04_006260 | RubberDandelionOmics

Gene overview

LXL04_006260

Reference: OH-1004 Chr: Chr02 Coordinates: 5370533-5371573 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

906 bp · LXL04_006260|LXL04_006260|OH1004|cDNA

ATGCGAGGTCGGCATTTATGTGAGGAGTTGATGATTGAAATCTTCACGAGACTACCATTCAAAACACTCTTGCAATGCAGATCAGTCTCCAAATCATGGTATTCTTATATCGGTAGCCCAGATTTCATCCGCATGTACACTTTTCGATCTCAACAAAAACTCGTAATAAGACACCGGACGTATAACGAAAATCAAGAAGGTGAATACGAAGGCTTCTACACATTACATTCACGGGAAAAATTGTGTCCCACACGTGGATA...

CDS

Download CDS FASTA

906 bp · LXL04_006260|LXL04_006260|OH1004|CDS

ATGCGAGGTCGGCATTTATGTGAGGAGTTGATGATTGAAATCTTCACGAGACTACCATTCAAAACACTCTTGCAATGCAGATCAGTCTCCAAATCATGGTATTCTTATATCGGTAGCCCAGATTTCATCCGCATGTACACTTTTCGATCTCAACAAAAACTCGTAATAAGACACCGGACGTATAACGAAAATCAAGAAGGTGAATACGAAGGCTTCTACACATTACATTCACGGGAAAAATTGTGTCCCACACGTGGATA...

Protein

Download Protein FASTA

301 aa · LXL04_006260|LXL04_006260|OH1004|PROTEIN

MRGRHLCEELMIEIFTRLPFKTLLQCRSVSKSWYSYIGSPDFIRMYTFRSQQKLVIRHRTYNENQEGEYEGFYTLHSREKLCPTRGYVGIPQLPFPFSYSIIVGSCNGIVCLYNYSDNSIKLWNPSIRRTVILPDCPRRCYFEVEVAFGYDPIADDYNVVRLTIVNVNRDGGSYVYAMKTDAWCLIDSPMPDFRKVKTKACFVSGALHWLAQRYKKSNWRDDSWSVEIKLDKSNGVRDLEGVWQLGSTGDLIFDLYSKGY...

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_006260`
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_006260

Location Chr02:5370533-5371573 (+)

Description Similar to At3g16210: Putative F-box protein At3g16210

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g16210`	Putative F-box protein At3g16210.	No verified direct reference in this release
`At1g47790`	Putative F-box protein At1g47790.	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
`At3g10430`	Putative F-box protein At3g10430.	No verified direct reference in this release
`At4g21240`	Putative F-box protein At4g21240.	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_006260 · 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

GO:0009507 chloroplast Cellular Component

KEGG gene cross-reference

ath:AT1G47790

ath:AT3G10430

ath:AT3G16210

ath:AT4G12560

ath:AT4G21240

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.

Cytoplasm0.633

Rank 1 · LXL04_006260 · OH-1004

Nucleus0.453

Rank 2 · LXL04_006260 · OH-1004

Cell membrane0.082

Rank 3 · LXL04_006260 · OH-1004

Endoplasmic reticulum0.066

Rank 4 · LXL04_006260 · OH-1004

Lysosome / Vacuole0.034

Rank 5 · LXL04_006260 · 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.

PF00646.39F-box5-43 aa

PF12937.13F-box-like8-40 aa

PF08268.18FBA_395-218 aa

PF07734.19FBA_1103-216 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_006260	`PF00646.39`	F-box	5	43	2.7e-10	40.4
LXL04_006260	`PF12937.13`	F-box-like	8	40	2.9e-07	30.9
LXL04_006260	`PF08268.18`	FBA_3	95	218	3.3e-14	53.3
LXL04_006260	`PF07734.19`	FBA_1	103	216	2.1e-11	44.1

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
`Q9LU24`	Arabidopsis thaliana	Putative F-box protein At3g16210	29.954%	Swiss-Prot	weak database homology
`Q9FZF8`	Arabidopsis thaliana	Putative F-box protein At1g47790	26.667%	Swiss-Prot	weak database homology
`Q9SU30`	Arabidopsis thaliana	F-box protein CPR1	26.891%	Swiss-Prot	weak database homology
`Q9CAE7`	Arabidopsis thaliana	Putative F-box protein At3g10430	24.348%	Swiss-Prot	weak database homology
`O49565`	Arabidopsis thaliana	Putative F-box protein At4g21240	26.639%	Swiss-Prot	weak database homology

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