LXL04_002249 | RubberDandelionOmics

Gene overview

LXL04_002249

Reference: OH-1004 Chr: Chr01 Coordinates: 44613507-44615273 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1350 bp · LXL04_002249|LXL04_002249|OH1004|cDNA

ATGAAGAAAGCGGGCCATGGAAAGGCTCCTCGCAAAAGCAGAGGAGCCAGAAAAAAGAACTATATTAAGGAGGACTCGCGGGATGTTTCTGAAGAGGCAGAGCAAAGTGTTGTTGAAGATGAGAACGCTTCATGTGCTGAGCTTGTGAAGGCCTTCAAATGTAGCACCATCAGTAGTTATAAAGCAGCATCAGAGCTTTCAACAACCATTGAAAACCTCCCTGAGGAGCTCTTAATAAACATATTCATCCGTTTATTGGC...

CDS

Download CDS FASTA

1350 bp · LXL04_002249|LXL04_002249|OH1004|CDS

ATGAAGAAAGCGGGCCATGGAAAGGCTCCTCGCAAAAGCAGAGGAGCCAGAAAAAAGAACTATATTAAGGAGGACTCGCGGGATGTTTCTGAAGAGGCAGAGCAAAGTGTTGTTGAAGATGAGAACGCTTCATGTGCTGAGCTTGTGAAGGCCTTCAAATGTAGCACCATCAGTAGTTATAAAGCAGCATCAGAGCTTTCAACAACCATTGAAAACCTCCCTGAGGAGCTCTTAATAAACATATTCATCCGTTTATTGGC...

Protein

Download Protein FASTA

449 aa · LXL04_002249|LXL04_002249|OH1004|PROTEIN

MKKAGHGKAPRKSRGARKKNYIKEDSRDVSEEAEQSVVEDENASCAELVKAFKCSTISSYKAASELSTTIENLPEELLINIFIRLLAKQLAKMRAVSKSWNALLSESSFVKSHLHHSIHSSELMLAAMNEDVCSCNSAQCTVHTNPSPELSPTSPVNPQSNRIKVIGAVTGLVCLSSYNYSVISIKNFSLSAVSRLPPFLLPDSTTSQIFLRFGFDPQTDDYKVVKLTGIMSMKKLSSAVGRMQFPYRMKKWLKVEVYSM...

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_002249`
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_002249

Location Chr01:44613507-44615273 (+)

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_002249 · 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: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

KEGG gene cross-reference

ath:AT3G06240

ath:AT3G07870

ath:AT3G16210

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.

Cytoplasm0.485

Rank 1 · LXL04_002249 · OH-1004

Nucleus0.483

Rank 2 · LXL04_002249 · OH-1004

Cell membrane0.145

Rank 3 · LXL04_002249 · OH-1004

Endoplasmic reticulum0.074

Rank 4 · LXL04_002249 · OH-1004

Lysosome / Vacuole0.034

Rank 5 · LXL04_002249 · 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-like70-108 aa

PF00646.39F-box70-109 aa

PF08268.18FBA_3138-395 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_002249	`PF12937.13`	F-box-like	70	108	9.9e-09	35.6
LXL04_002249	`PF00646.39`	F-box	70	109	1.7e-07	31.6
LXL04_002249	`PF08268.18`	FBA_3	138	395	2.3e-17	63.7

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
`Q9SU30`	Arabidopsis thaliana	F-box protein CPR1	30.328%	Swiss-Prot	moderate database homology
`Q8GXC7`	Arabidopsis thaliana	F-box/kelch-repeat protein At3g06240	25.243%	Swiss-Prot	weak database homology
`Q9SUY0`	Arabidopsis thaliana	F-box protein At4g22390	28.371%	Swiss-Prot	weak database homology
`Q9SFC7`	Arabidopsis thaliana	F-box protein At3g07870	24.646%	Swiss-Prot	weak database homology
`Q9LU24`	Arabidopsis thaliana	Putative F-box protein At3g16210	26.113%	Swiss-Prot	weak database homology

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