LXL04_006648 | RubberDandelionOmics

Gene overview

LXL04_006648

Reference: OH-1004 Chr: Chr02 Coordinates: 20934833-20936882 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1374 bp · LXL04_006648|LXL04_006648|OH1004|cDNA

ATGTACGCTGATCTGGGCATCCACGATACTCACCCCCTTATGTTTCCGTTTCTCTTCGTTTCCCTCCTCTCTTTTTCTCTCCTCTTGTTTTCTCTCTACACCAGACGGCGGCGGCAGCAGCAGCTCTGCCACCATCATTCACCGCCACTGCTCACCGACATTGTCCGTACTATCAATAGTAATGATCACACTACTAGCATTCAAAACGTAAAACCGAACGTTTCGAACCCTAATAATTCCTTGCTGCTTGAGATCTTGCC...

CDS

Download CDS FASTA

1374 bp · LXL04_006648|LXL04_006648|OH1004|CDS

ATGTACGCTGATCTGGGCATCCACGATACTCACCCCCTTATGTTTCCGTTTCTCTTCGTTTCCCTCCTCTCTTTTTCTCTCCTCTTGTTTTCTCTCTACACCAGACGGCGGCGGCAGCAGCAGCTCTGCCACCATCATTCACCGCCACTGCTCACCGACATTGTCCGTACTATCAATAGTAATGATCACACTACTAGCATTCAAAACGTAAAACCGAACGTTTCGAACCCTAATAATTCCTTGCTGCTTGAGATCTTGCC...

Protein

Download Protein FASTA

457 aa · LXL04_006648|LXL04_006648|OH1004|PROTEIN

MYADLGIHDTHPLMFPFLFVSLLSFSLLLFSLYTRRRRQQQLCHHHSPPLLTDIVRTINSNDHTTSIQNVKPNVSNPNNSLLLEILPALYEDNQAAKKSESTVTGDEECVKKKKKKRGKKKRSDSDDLSKTQVVIKEGLTEGIGKEKENQDLVCLYPFTSSSSATQRKIKQQYDQLVKSHESDGLTLLQAGDRPVVLQCVNHKPFILVDRSNPYFSPQGLQMSLPDELWRWILELGVETSSLTYKDICCLSMTSKRLNRL...

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_006648`
TK1151 ID	TkA01G588010
OH-1004 ID	LXL04_006648
Relationship / confidence	Sequence Supported Annotation Or Model Conflict / Review
Protein identity (%)	100.000
Protein coverage (%)	TK1151 90.256 / OH-1004 38.512 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_006648

Location Chr02:20934833-20936882 (-)

Description Similar to SKIP24: F-box protein SKIP24

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g08710`	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

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_006648 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0016567 protein ubiquitination Biological Process

GO:0005634 nucleus Cellular Component

GO:0005886 plasma membrane Cellular Component

KEGG gene cross-reference

ath:AT1G08710

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.

Nucleus0.825

Rank 1 · LXL04_006648 · OH-1004

Cytoplasm0.169

Rank 2 · LXL04_006648 · OH-1004

Cell membrane0.062

Rank 3 · LXL04_006648 · OH-1004

Endoplasmic reticulum0.051

Rank 4 · LXL04_006648 · OH-1004

Plastid0.020

Rank 5 · LXL04_006648 · 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.

PF28649.1SKIP24_C310-421 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_006648	`PF28649.1`	SKIP24_C	310	421	1.4e-41	141.7

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q9CAZ0`	Arabidopsis thaliana	F-box protein SKIP24	45.607%	Swiss-Prot	moderate database homology

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