LXL04_024028 | RubberDandelionOmics

Gene overview

LXL04_024028

Reference: OH-1004 Chr: Chr05 Coordinates: 78151570-78153320 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1293 bp · LXL04_024028|LXL04_024028|OH1004|cDNA

ATGCGTACAAAAGAAATAGATggttactctcacaaGCTTGGTGGCGCTCTTCCATTTCCGACCTCGAACAACCGCGAATGGAAGACTACAATTCAATCAGTCAAATCGACGACGAGGCTTATCACAACTCATTTTCGAGCCACCACCGTCCGCAGATCACTTATTCAAGAAAGAGAAAACACAGCCAATCTCAATCTCAATCTCAGAATTTTGTATAGGTACATTTATGTGTCGAAATTCAAAGACGTTCTTGATCGATT...

CDS

Download CDS FASTA

1293 bp · LXL04_024028|LXL04_024028|OH1004|CDS

ATGCGTACAAAAGAAATAGATGGTTACTCTCACAAGCTTGGTGGCGCTCTTCCATTTCCGACCTCGAACAACCGCGAATGGAAGACTACAATTCAATCAGTCAAATCGACGACGAGGCTTATCACAACTCATTTTCGAGCCACCACCGTCCGCAGATCACTTATTCAAGAAAGAGAAAACACAGCCAATCTCAATCTCAATCTCAGAATTTTGTATAGGTACATTTATGTGTCGAAATTCAAAGACGTTCTTGATCGATT...

Protein

Download Protein FASTA

430 aa · LXL04_024028|LXL04_024028|OH1004|PROTEIN

MRTKEIDGYSHKLGGALPFPTSNNREWKTTIQSVKSTTRLITTHFRATTVRRSLIQERENTANLNLNLRILYRYIYVSKFKDVLDRFRPETYNSSKFSVLFLSTFEEQQQSDQFKVLGVSNGLILCCLLGPLVYYVCDPVTRQWVTLPRGRDKSPNRHPIFFGEGFVSRVNEDNVLTSYTVVRVELLNSLSTHLNLETFSSETGKWVDYRLPCPNPIALLKRGGGPITFNGILHWFVYKHGMVAFDPHQDPKSCRLIQFP...

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_024028`
TK1151 ID	TkA06G186090
OH-1004 ID	LXL04_024028
Relationship / confidence	Rbh Sequence Supported / Probable
Protein identity (%)	97.800
Protein coverage (%)	TK1151 75.714 / OH-1004 86.279 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_024028

Location Chr05:78151570-78153320 (-)

Description Similar to At1g49990: F-box protein At1g49990

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g49990`	F-box protein At1g49990.	No verified direct reference in this release
`At5g03970`	F-box protein At5g03970.	No verified direct reference in this release
`At3g23970`	Putative F-box protein At3g23970.	No verified direct reference in this release
`At3g28330`	F-box protein At3g28330.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

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Functional annotation source: OH1004 · LXL04_024028 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0031146 SCF-dependent proteasomal ubiquitin-dependent protein catabolic process Biological Process

GO:0005634 nucleus Cellular Component

GO:0005739 mitochondrion Cellular Component

GO:0004842 ubiquitin-protein transferase activity Molecular Function

KEGG gene cross-reference

ath:AT1G49990

ath:AT3G23970

ath:AT3G28330

ath:AT5G03970

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.

Cytoplasm0.492

Rank 1 · LXL04_024028 · OH-1004

Nucleus0.402

Rank 2 · LXL04_024028 · OH-1004

Cell membrane0.173

Rank 3 · LXL04_024028 · OH-1004

Endoplasmic reticulum0.098

Rank 4 · LXL04_024028 · OH-1004

Plastid0.040

Rank 5 · LXL04_024028 · 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.

PF24750.2b-prop_At3g26010-like81-375 aa

PF08268.18FBA_3105-328 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_024028	`PF24750.2`	b-prop_At3g26010-like	81	375	5.7e-36	125.0
LXL04_024028	`PF08268.18`	FBA_3	105	328	4.3e-07	30.0

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.

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Protein	Organism	Description	Identity	Database	Confidence
`Q9LPM2`	Arabidopsis thaliana	F-box protein At1g49990	24.249%	Swiss-Prot	weak database homology
`Q94A64`	Arabidopsis thaliana	F-box protein At5g03970	27.010%	Swiss-Prot	weak database homology
`Q9LIR0`	Arabidopsis thaliana	Putative F-box protein At3g23970	22.923%	Swiss-Prot	weak database homology
`Q9LHD3`	Arabidopsis thaliana	F-box protein At3g28330	22.817%	Swiss-Prot	weak database homology

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