LXL04_016746 | RubberDandelionOmics

Gene overview

LXL04_016746

Reference: OH-1004 Chr: Chr03 Coordinates: 132616017-132617000 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

819 bp · LXL04_016746|LXL04_016746|OH1004|cDNA

ATGGAGCATTTACCGGAAGACTGCATAGTGGACGTCCTCTCTCGTGTGTCACCTCGGGATGTGTGCAGGTTTACAGTGACGGCTTCCGCAATTAGAGATGCTGTAGAGTCGGAGGTGTTGTGGGATAAGTTATTGCCACCCCATTATCAAGAAATCATATCAAGAAGTGTGTCTCCATTGACGTTCAAATCCAAGAAGGATCTCTTCTTTAAGCTTTCATCTCCTCTTCTCATTGATGGTGGCCTAAAGACATTCTCGAT...

CDS

Download CDS FASTA

819 bp · LXL04_016746|LXL04_016746|OH1004|CDS

ATGGAGCATTTACCGGAAGACTGCATAGTGGACGTCCTCTCTCGTGTGTCACCTCGGGATGTGTGCAGGTTTACAGTGACGGCTTCCGCAATTAGAGATGCTGTAGAGTCGGAGGTGTTGTGGGATAAGTTATTGCCACCCCATTATCAAGAAATCATATCAAGAAGTGTGTCTCCATTGACGTTCAAATCCAAGAAGGATCTCTTCTTTAAGCTTTCATCTCCTCTTCTCATTGATGGTGGCCTAAAGACATTCTCGAT...

Protein

Download Protein FASTA

272 aa · LXL04_016746|LXL04_016746|OH1004|PROTEIN

MEHLPEDCIVDVLSRVSPRDVCRFTVTASAIRDAVESEVLWDKLLPPHYQEIISRSVSPLTFKSKKDLFFKLSSPLLIDGGLKTFSIQKATGKKCYMLSARDLYIAWSANSLFWCWKPLIKSRFSEVVELRMTSWLEIVGKINTRSLSPNTHYGAYLITEVARYRAFGLDALPCEVSVEVGEYRSQGKIIFSHNKCSNPCRLDEYKKGLRSKFGEEISSVCYEREDGWLEIELGGFYNDGSCDKEVKMSLREVNGVHLKG...

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_016746`
Source version	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_016746

Location Chr03:132616017-132617000 (+)

Description Similar to PP2B15: F-box protein PP2-B15

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g09155`	F-box protein PP2-B15.	No verified direct reference in this release
`At1g56240`	F-box protein PP2-B13.	No verified direct reference in this release
`At1g56250`	Component of SCF(VBF) E3 ubiquitin ligase complexes, which mediate the ubiquitination and subsequent proteasomal degradation of target proteins such as VIP1 and Agrobacterium virE2, after their implication in T-DNA translocation to the host nucleus (can functionally replace Agrobacterium VirF).	No verified direct reference in this release
`At2g02240`	F-box protein At2g02240.	No verified direct reference in this release
`At2g02360`	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_016746 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009617 response to bacterium Biological Process

GO:0009793 embryo development ending in seed dormancy Biological Process

GO:0016567 protein ubiquitination Biological Process

GO:0005634 nucleus Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0030246 carbohydrate binding Molecular Function

KEGG gene cross-reference

ath:AT1G09155

ath:AT1G56240

ath:AT1G56250

ath:AT2G02240

ath:AT2G02360

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.

Cytoplasm0.559

Rank 1 · LXL04_016746 · OH-1004

Nucleus0.529

Rank 2 · LXL04_016746 · OH-1004

Cell membrane0.067

Rank 3 · LXL04_016746 · OH-1004

Endoplasmic reticulum0.062

Rank 4 · LXL04_016746 · OH-1004

Lysosome / Vacuole0.034

Rank 5 · LXL04_016746 · 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-like2-44 aa

PF00646.39F-box2-42 aa

PF14299.14PP293-271 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_016746	`PF12937.13`	F-box-like	2	44	4.9e-06	26.9
LXL04_016746	`PF00646.39`	F-box	2	42	7.3e-06	26.4
LXL04_016746	`PF14299.14`	PP2	93	271	7.9e-49	166.2

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`O80494`	Arabidopsis thaliana	F-box protein PP2-B15	45.683%	Swiss-Prot	moderate database homology
`Q9C7J9`	Arabidopsis thaliana	F-box protein PP2-B13	41.522%	Swiss-Prot	moderate database homology
`Q9C7K0`	Arabidopsis thaliana	F-box protein VBF	41.319%	Swiss-Prot	moderate database homology
`Q3E6P4`	Arabidopsis thaliana	F-box protein At2g02240	39.706%	Swiss-Prot	moderate database homology
`Q9ZVQ6`	Arabidopsis thaliana	F-box protein PP2-B10	38.182%	Swiss-Prot	moderate database homology

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