LXL04_027580 | RubberDandelionOmics

Gene overview

LXL04_027580

Reference: OH-1004 Chr: Chr06 Coordinates: 19398134-19401575 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1015 bp · LXL04_027580|LXL04_027580|OH1004|cDNA

CATTCTAAATACGTCACCGATTACAAATACGATGGTACTGCTTGATAATAAATCGGCAAACTCATCGCATTTCACAGTTACAATGGCGTCTCCGTCTACCTCCGCCGCAAATCCGTCGTCAGCGATGGAGGAGCATCCAAATTGGCTGGAAATGCCTCACGAACTGATGGCAAATATACTTCAAAGATTAGGCACCATAGAAATACTGGAGAGCGCATGGGAAGTGTGTACAACTTGGCGGAAAATCTGCAAGAATCCGG...

CDS

Download CDS FASTA

984 bp · LXL04_027580|LXL04_027580|OH1004|CDS

ATGGTACTGCTTGATAATAAATCGGCAAACTCATCGCATTTCACAGTTACAATGGCGTCTCCGTCTACCTCCGCCGCAAATCCGTCGTCAGCGATGGAGGAGCATCCAAATTGGCTGGAAATGCCTCACGAACTGATGGCAAATATACTTCAAAGATTAGGCACCATAGAAATACTGGAGAGCGCATGGGAAGTGTGTACAACTTGGCGGAAAATCTGCAAGAATCCGGAGATGTGGAAGAACATCGTCCTTATACACAA...

Protein

Download Protein FASTA

327 aa · LXL04_027580|LXL04_027580|OH1004|PROTEIN

MVLLDNKSANSSHFTVTMASPSTSAANPSSAMEEHPNWLEMPHELMANILQRLGTIEILESAWEVCTTWRKICKNPEMWKNIVLIHNAFDDWRQMFHLERLTKRAVDLSCGEVIAIDIKGFGTDELLDHILLSSRKLKHLYLMDCYDITGSQLIRAVKSMPQLEELGISYISIDKEDIKVIGQNCPHLKTFMVLAGLVGAFMMNSDDNAFAIANNMPELTCLKLFDRSMTNIGLKAILEGCPHLESLDIRMCYDLDLDEN...

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_027580`
TK1151 ID	TkA07G074330
OH-1004 ID	LXL04_027580
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	100.000
Protein coverage (%)	TK1151 92.264 / OH-1004 98.471 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_027580

Location Chr06:19398134-19401575 (-)

Description Similar to FBL23: Putative F-box/LRR-repeat protein 23

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g05500`	Putative F-box/LRR-repeat protein 23.	No verified direct reference in this release
`At4g05460`	Component of SCF(ASK-cullin-F-box) E3 ubiquitin ligase complexes, which may mediate the ubiquitination and subsequent proteasomal degradation of target proteins.	No verified direct reference in this release
`At4g05475`	Putative F-box protein At4g05475.	No verified direct reference in this release
`At4g05497`	Putative F-box/LRR-repeat protein 9.	No verified direct reference in this release
`At4g05470`	Putative F-box/LRR-repeat protein 21.	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_027580 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006511 ubiquitin-dependent protein catabolic process Biological Process

GO:0016567 protein ubiquitination Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:1905761 SCF ubiquitin ligase complex binding Molecular Function

KEGG gene cross-reference

ath:AT4G05460

ath:AT4G05475

ath:AT4G05497

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.

Nucleus0.573

Rank 1 · LXL04_027580 · OH-1004

Cytoplasm0.499

Rank 2 · LXL04_027580 · OH-1004

Endoplasmic reticulum0.064

Rank 3 · LXL04_027580 · OH-1004

Cell membrane0.060

Rank 4 · LXL04_027580 · OH-1004

Plastid0.032

Rank 5 · LXL04_027580 · 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-box38-80 aa

PF12937.13F-box-like38-84 aa

PF29594.1LRR_SKP2127-258 aa

PF24758.2LRR_At5g56370129-195 aa

PF24758.2LRR_At5g56370206-253 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_027580	`PF00646.39`	F-box	38	80	9.7e-08	32.3
LXL04_027580	`PF12937.13`	F-box-like	38	84	1.8e-07	31.6
LXL04_027580	`PF29594.1`	LRR_SKP2	127	258	7.5e-07	29.4
LXL04_027580	`PF24758.2`	LRR_At5g56370	129	195	7.5e-12	46.1
LXL04_027580	`PF24758.2`	LRR_At5g56370	206	253	7.5e-12	46.1

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
`Q9S9V9`	Arabidopsis thaliana	Putative F-box/LRR-repeat protein 23	44.538%	Swiss-Prot	moderate database homology
`Q9M0U9`	Arabidopsis thaliana	F-box protein SKIP19	39.604%	Swiss-Prot	moderate database homology
`Q9M0U7`	Arabidopsis thaliana	Putative F-box protein At4g05475	40.873%	Swiss-Prot	moderate database homology
`Q9S9V8`	Arabidopsis thaliana	Putative F-box/LRR-repeat protein 9	38.889%	Swiss-Prot	moderate database homology
`Q9M0U8`	Arabidopsis thaliana	Putative F-box/LRR-repeat protein 21	38.760%	Swiss-Prot	moderate database homology

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