LXL04_025540 | RubberDandelionOmics

Gene overview

LXL04_025540

Reference: OH-1004 Chr: Chr05 Coordinates: 113099020-113100327 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1308 bp · LXL04_025540|LXL04_025540|OH1004|cDNA

ATGGAACCGCTCGTTGGAGGTTCGCCGGATACATCAATGTCTCTGGAGACGGTTACGACGGTTTTAGGAACTCAGAACAACGAAAAAACCCTAACATTCATACGGCCAATGGATACAGGAGCTGCAAAAGACAATTCAACATCAGGTCGTTCATTTTCAGATACATTTGCTGCTGATCTCATTGCTTCTAGCGAAGATCTTTTAACCGAAATTTTTCACCGGTTACCGATGATTTCACTCGTACGATTAATGTCCGTATC...

CDS

Download CDS FASTA

1308 bp · LXL04_025540|LXL04_025540|OH1004|CDS

ATGGAACCGCTCGTTGGAGGTTCGCCGGATACATCAATGTCTCTGGAGACGGTTACGACGGTTTTAGGAACTCAGAACAACGAAAAAACCCTAACATTCATACGGCCAATGGATACAGGAGCTGCAAAAGACAATTCAACATCAGGTCGTTCATTTTCAGATACATTTGCTGCTGATCTCATTGCTTCTAGCGAAGATCTTTTAACCGAAATTTTTCACCGGTTACCGATGATTTCACTCGTACGATTAATGTCCGTATC...

Protein

Download Protein FASTA

435 aa · LXL04_025540|LXL04_025540|OH1004|PROTEIN

MEPLVGGSPDTSMSLETVTTVLGTQNNEKTLTFIRPMDTGAAKDNSTSGRSFSDTFAADLIASSEDLLTEIFHRLPMISLVRLMSVSKQWNLFIKSSSFVHLRNPNPDPPSGLFFEGWDARYKYHYVPLDFGNFVNRPPFTTLRFDSGSIKILQSCNGLLLCANDFQKYYVHNPTTNRFTTLPQLNNFNPDSICCMTLAFDLSKSSHYKVVCNYMYRGMTVEIYSSESGKWKILNERTDDLVDLDRGVYGHNAIHWMSFP...

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_025540`
TK1151 ID	TkA06G053600
OH-1004 ID	LXL04_025540
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	97.700
Protein coverage (%)	TK1151 100.000 / OH-1004 100.000 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

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_025540

Location Chr05:113099020-113100327 (+)

Description Similar to At5g07610: F-box protein At5g07610

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g07610`	F-box protein At5g07610.	No verified direct reference in this release
`At3g17280`	Putative F-box/kelch-repeat protein At3g17280.	No verified direct reference in this release
`At4g10190`	Putative F-box protein At4g10190.	No verified direct reference in this release
`At3g07870`	F-box protein At3g07870.	No verified direct reference in this release
`At1g12870`	Putative F-box/kelch-repeat protein At1g12870.	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_025540 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0008284 positive regulation of cell population proliferation Biological Process

GO:0000325 plant-type vacuole Cellular Component

GO:0005634 nucleus Cellular Component

GO:0009506 plasmodesma Cellular Component

KEGG gene cross-reference

ath:AT1G12870

ath:AT3G07870

ath:AT3G17280

ath:AT4G10190

ath:AT5G07610

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.

Cytoplasm0.605

Rank 1 · LXL04_025540 · OH-1004

Nucleus0.475

Rank 2 · LXL04_025540 · OH-1004

Cell membrane0.089

Rank 3 · LXL04_025540 · OH-1004

Endoplasmic reticulum0.065

Rank 4 · LXL04_025540 · OH-1004

Lysosome / Vacuole0.030

Rank 5 · LXL04_025540 · 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.

PF00646.39F-box65-100 aa

PF03478.25Beta-prop_KIB1-4147-325 aa

PF08268.18FBA_3148-245 aa

PF07734.19FBA_1149-258 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_025540	`PF00646.39`	F-box	65	100	5.8e-08	33.0
LXL04_025540	`PF03478.25`	Beta-prop_KIB1-4	147	325	1.4e-07	32.0
LXL04_025540	`PF08268.18`	FBA_3	148	245	1.5e-06	28.2
LXL04_025540	`PF07734.19`	FBA_1	149	258	4.6e-11	43.0

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
`Q9FLS0`	Arabidopsis thaliana	F-box protein At5g07610	27.553%	Swiss-Prot	weak database homology
`Q9LUU3`	Arabidopsis thaliana	Putative F-box/kelch-repeat protein At3g17280	26.316%	Swiss-Prot	weak database homology
`O82622`	Arabidopsis thaliana	Putative F-box protein At4g10190	27.354%	Swiss-Prot	weak database homology
`Q9SFC7`	Arabidopsis thaliana	F-box protein At3g07870	24.303%	Swiss-Prot	weak database homology
`Q9LPW2`	Arabidopsis thaliana	Putative F-box/kelch-repeat protein At1g12870	29.064%	Swiss-Prot	weak database homology

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