LXL04_027567 | RubberDandelionOmics

Gene overview

LXL04_027567

Reference: OH-1004 Chr: Chr06 Coordinates: 19151203-19152464 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

915 bp · LXL04_027567|LXL04_027567|OH1004|cDNA

ATGGCGTCGACCTCCACCGTAAAGCGGTTGCGTGCAGTGGAGGAATCTCCAAATTGGCTGGAATTGCCTCACGAACTGATGGCAAATATACTTAAAAGACTGGGAGATGTAGAAATACTCAACAGCGCAGTGAAAGTTTGCACAACATGGCGGAGAATTGGTAGAGATCCTGCGATGTGGAAGGTCATAAATATGTACAAACCGGCTAGGGCTCGGAATGCTAATTACGATCTTGAGGCGCTGACTACACAGGCCGTGCA...

CDS

Download CDS FASTA

915 bp · LXL04_027567|LXL04_027567|OH1004|CDS

ATGGCGTCGACCTCCACCGTAAAGCGGTTGCGTGCAGTGGAGGAATCTCCAAATTGGCTGGAATTGCCTCACGAACTGATGGCAAATATACTTAAAAGACTGGGAGATGTAGAAATACTCAACAGCGCAGTGAAAGTTTGCACAACATGGCGGAGAATTGGTAGAGATCCTGCGATGTGGAAGGTCATAAATATGTACAAACCGGCTAGGGCTCGGAATGCTAATTACGATCTTGAGGCGCTGACTACACAGGCCGTGCA...

Protein

Download Protein FASTA

304 aa · LXL04_027567|LXL04_027567|OH1004|PROTEIN

MASTSTVKRLRAVEESPNWLELPHELMANILKRLGDVEILNSAVKVCTTWRRIGRDPAMWKVINMYKPARARNANYDLEALTTQAVHLSSGELIDISLEGFGTDDDFLYHIVSRSSKLNSLCLTNCYNITGSGLTHVLKRALQLEKLYITYTSSIKYNEVVVPNCPHLKSFKLDKACIYEGIVNDDDALAIAKNMPELRQLQLYGNAMSNNGLKAILDGCPHLESLDIRMCYNVDINGNELKPSLERLKSFKGPNDSTEN...

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_027567`
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_027567

Location Chr06:19151203-19152464 (-)

Description Similar to SKIP19: F-box protein SKIP19

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`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
`At4g05500`	Putative F-box/LRR-repeat protein 23.	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_027567 · 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.

Nucleus0.545

Rank 1 · LXL04_027567 · OH-1004

Cytoplasm0.518

Rank 2 · LXL04_027567 · OH-1004

Endoplasmic reticulum0.070

Rank 3 · LXL04_027567 · OH-1004

Cell membrane0.061

Rank 4 · LXL04_027567 · OH-1004

Plastid0.033

Rank 5 · LXL04_027567 · 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-like19-62 aa

PF00646.39F-box19-61 aa

PF29594.1LRR_SKP284-153 aa

PF24758.2LRR_At5g56370185-237 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_027567	`PF12937.13`	F-box-like	19	62	8.7e-09	35.7
LXL04_027567	`PF00646.39`	F-box	19	61	1.1e-06	28.9
LXL04_027567	`PF29594.1`	LRR_SKP2	84	153	3.2e-09	37.2
LXL04_027567	`PF24758.2`	LRR_At5g56370	185	237	3.1e-12	47.3

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
`Q9M0U9`	Arabidopsis thaliana	F-box protein SKIP19	42.671%	Swiss-Prot	moderate database homology
`Q9S9V9`	Arabidopsis thaliana	Putative F-box/LRR-repeat protein 23	43.333%	Swiss-Prot	moderate database homology
`Q9M0U7`	Arabidopsis thaliana	Putative F-box protein At4g05475	40.520%	Swiss-Prot	moderate database homology
`Q9S9V8`	Arabidopsis thaliana	Putative F-box/LRR-repeat protein 9	41.631%	Swiss-Prot	moderate database homology
`Q9M0U8`	Arabidopsis thaliana	Putative F-box/LRR-repeat protein 21	39.179%	Swiss-Prot	moderate database homology

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