LXL04_002261 | RubberDandelionOmics

Gene overview

LXL04_002261

Reference: OH-1004 Chr: Chr01 Coordinates: 44778255-44782668 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1272 bp · LXL04_002261|LXL04_002261|OH1004|cDNA

ATGAAAGAAAGTGTAGCTATGGCGAATGCGGACAATGAAATGCCCCCTTACGCATGCGGCGGAGCCGGAGAAAATTTCCGTAGGAGGCCTTGCCGACCAGAGATTTGTGAAGAAGCACAAAATGTTTCTCATCAATGTGGGAATTTTGCTACTTTTGGAAAATCAGAGCTTGAAGAAATGTTGAAACAGATGACCTTTACTAGGTCTGAAGCACAACATTTCATATCATTGTTGCATTCAAGAACCATTGAGGTGGAAAA...

CDS

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1272 bp · LXL04_002261|LXL04_002261|OH1004|CDS

ATGAAAGAAAGTGTAGCTATGGCGAATGCGGACAATGAAATGCCCCCTTACGCATGCGGCGGAGCCGGAGAAAATTTCCGTAGGAGGCCTTGCCGACCAGAGATTTGTGAAGAAGCACAAAATGTTTCTCATCAATGTGGGAATTTTGCTACTTTTGGAAAATCAGAGCTTGAAGAAATGTTGAAACAGATGACCTTTACTAGGTCTGAAGCACAACATTTCATATCATTGTTGCATTCAAGAACCATTGAGGTGGAAAA...

Protein

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423 aa · LXL04_002261|LXL04_002261|OH1004|PROTEIN

MKESVAMANADNEMPPYACGGAGENFRRRPCRPEICEEAQNVSHQCGNFATFGKSELEEMLKQMTFTRSEAQHFISLLHSRTIEVENPPTPVSRLEASTTSGTLKKHKHGDASSRVLEEEIVSPAHRRTQDSKLVNCNATSTFLLITSPQHHPTTMENLPDELLSNIFLRLFAKQLAQMRSVSKSWNALLSHPSFIKSHLHHSVHNNDQILLLFHNEEATKLFTAKLSRSPSLKLTNFIKLPVNLQIQSEHINGIRVIGS...

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_002261`
TK1151 ID	TkA01G443000
OH-1004 ID	LXL04_002261
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	76.400
Protein coverage (%)	TK1151 100.000 / OH-1004 98.582 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

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Basic Information and Functional Annotation

Gene ID LXL04_002261

Location Chr01:44778255-44782668 (-)

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
`At1g47790`	Putative F-box protein At1g47790.	No verified direct reference in this release
`At3g06240`	F-box/kelch-repeat protein At3g06240.	No verified direct reference in this release
`At1g33530`	Putative F-box protein At1g33530.	No verified direct reference in this release
`At3g17270`	Putative F-box protein At3g17270.	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_002261 · 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:AT1G33530

ath:AT1G47790

ath:AT3G06240

ath:AT3G17270

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.

Nucleus0.782

Rank 1 · LXL04_002261 · OH-1004

Cytoplasm0.305

Rank 2 · LXL04_002261 · OH-1004

Cell membrane0.049

Rank 3 · LXL04_002261 · OH-1004

Endoplasmic reticulum0.042

Rank 4 · LXL04_002261 · OH-1004

Mitochondrion0.021

Rank 5 · LXL04_002261 · 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-box157-196 aa

PF12937.13F-box-like157-195 aa

PF08268.18FBA_3211-293 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_002261	`PF00646.39`	F-box	157	196	6.9e-09	36.0
LXL04_002261	`PF12937.13`	F-box-like	157	195	8.2e-09	35.8
LXL04_002261	`PF08268.18`	FBA_3	211	293	3.3e-10	40.2

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.

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Protein	Organism	Description	Identity	Database	Confidence
`Q9SU30`	Arabidopsis thaliana	F-box protein CPR1	34.307%	Swiss-Prot	weak database homology
`Q9FZF8`	Arabidopsis thaliana	Putative F-box protein At1g47790	31.081%	Swiss-Prot	weak database homology
`Q8GXC7`	Arabidopsis thaliana	F-box/kelch-repeat protein At3g06240	37.500%	Swiss-Prot	weak database homology
`Q9C800`	Arabidopsis thaliana	Putative F-box protein At1g33530	30.556%	Swiss-Prot	weak database homology
`Q9LUU4`	Arabidopsis thaliana	Putative F-box protein At3g17270	41.270%	Swiss-Prot	weak database homology

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