LXL04_002251 | RubberDandelionOmics

Gene overview

LXL04_002251

Reference: OH-1004 Chr: Chr01 Coordinates: 44641565-44652065 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

3447 bp · LXL04_002251|LXL04_002251|OH1004|cDNA

ATGGTAAATAAAAACATGAAGTTAGATCTACTTGCTCCAACTTCCCATATGGCGACGACAGGCAATGGAAGTGCTAACGAAAGCGGCGGAGAGGGAGTAAACTTCCGTAAGAGGTCGTTCCACCCAGAGTTTAATGAAGATCCACAAAATATTTCTCAGGAGGCAGGGCAACATAATTCAAGTGGAGTATCAGAACTTAGCATTCATCAAGGTGGGAATATTGCTAGCATATCTATTACCGTTGGAAAATCAGAGCTTGA...

CDS

Download CDS FASTA

3447 bp · LXL04_002251|LXL04_002251|OH1004|CDS

ATGGTAAATAAAAACATGAAGTTAGATCTACTTGCTCCAACTTCCCATATGGCGACGACAGGCAATGGAAGTGCTAACGAAAGCGGCGGAGAGGGAGTAAACTTCCGTAAGAGGTCGTTCCACCCAGAGTTTAATGAAGATCCACAAAATATTTCTCAGGAGGCAGGGCAACATAATTCAAGTGGAGTATCAGAACTTAGCATTCATCAAGGTGGGAATATTGCTAGCATATCTATTACCGTTGGAAAATCAGAGCTTGA...

Protein

Download Protein FASTA

1148 aa · LXL04_002251|LXL04_002251|OH1004|PROTEIN

MVNKNMKLDLLAPTSHMATTGNGSANESGGEGVNFRKRSFHPEFNEDPQNISQEAGQHNSSGVSELSIHQGGNIASISITVGKSELEQIVKQMTFTCSEAQRLIALVQSRTIEEKSQSSLLLTKSGSLKKHKHGDETQQVEDNIRTGHGQASREDSSLINSNATQHPTTIQSLPDELLSNIFIRLLAKQLAQMRSVSKSWNAFLSHSSFVNSHLHRSIHYNDQILLTFYTHNDYIEPFTTHSCKSPHIELPNFIKLPVSP...

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_002251`
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_002251

Location Chr01:44641565-44652065 (-)

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
`At3g06240`	F-box/kelch-repeat protein At3g06240.	No verified direct reference in this release
`At4g22390`	F-box protein At4g22390.	No verified direct reference in this release
`At3g07870`	F-box protein At3g07870.	No verified direct reference in this release
`At3g16210`	Putative F-box protein At3g16210.	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_002251 · 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

KEGG gene cross-reference

ath:AT3G06240

ath:AT4G12560

ath:AT4G22390

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.

Cytoplasm0.683

Rank 1 · LXL04_002251 · OH-1004

Nucleus0.412

Rank 2 · LXL04_002251 · OH-1004

Cell membrane0.062

Rank 3 · LXL04_002251 · OH-1004

Endoplasmic reticulum0.051

Rank 4 · LXL04_002251 · OH-1004

Mitochondrion0.037

Rank 5 · LXL04_002251 · 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-like170-207 aa

PF00646.39F-box170-208 aa

PF08268.18FBA_3226-472 aa

PF07734.19FBA_1264-522 aa

PF12937.13F-box-like777-814 aa

PF00646.39F-box777-816 aa

PF08268.18FBA_3850-1082 aa

PF07734.19FBA_1871-1129 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_002251	`PF12937.13`	F-box-like	170	207	1.6e-15	57.3
LXL04_002251	`PF00646.39`	F-box	170	208	4.6e-13	49.2
LXL04_002251	`PF08268.18`	FBA_3	226	472	3.4e-47	161.7
LXL04_002251	`PF07734.19`	FBA_1	264	522	9.4e-40	137.2
LXL04_002251	`PF12937.13`	F-box-like	777	814	1.6e-15	57.3
LXL04_002251	`PF00646.39`	F-box	777	816	4.6e-13	49.2
LXL04_002251	`PF08268.18`	FBA_3	850	1082	3.4e-47	161.7
LXL04_002251	`PF07734.19`	FBA_1	871	1129	9.4e-40	137.2

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	28.205%	Swiss-Prot	weak database homology
`Q8GXC7`	Arabidopsis thaliana	F-box/kelch-repeat protein At3g06240	28.657%	Swiss-Prot	weak database homology
`Q9SUY0`	Arabidopsis thaliana	F-box protein At4g22390	28.247%	Swiss-Prot	weak database homology
`Q9SFC7`	Arabidopsis thaliana	F-box protein At3g07870	29.012%	Swiss-Prot	weak database homology
`Q9LU24`	Arabidopsis thaliana	Putative F-box protein At3g16210	23.611%	Swiss-Prot	weak database homology

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