LXL04_036902 | RubberDandelionOmics

Gene overview

LXL04_036902

Reference: OH-1004 Chr: Chr08 Coordinates: 49936651-49937895 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1245 bp · LXL04_036902|LXL04_036902|OH1004|cDNA

ATGCCTCCTCCATTGCCATCTTCTTCATTCACTACCGGTGCAGATCTTTATTCAGAAAATTcaaccctaaccctaattcCAGGTCTCCCGGACGATTTAGCAGCCTTGATACTTGCTTTTCTTCCATATTCTCATCACGGGAGGCTCAAATCCATTTGTAAATCATGGAAGCAGTTTTTTTCATCGAGAATCGTATTCTCAACCCGCCATAAACACATCCCTTTCATCAAACGCTCTCACCTCCTCTGTATCTTCCCTCA...

CDS

Download CDS FASTA

1245 bp · LXL04_036902|LXL04_036902|OH1004|CDS

ATGCCTCCTCCATTGCCATCTTCTTCATTCACTACCGGTGCAGATCTTTATTCAGAAAATTCAACCCTAACCCTAATTCCAGGTCTCCCGGACGATTTAGCAGCCTTGATACTTGCTTTTCTTCCATATTCTCATCACGGGAGGCTCAAATCCATTTGTAAATCATGGAAGCAGTTTTTTTCATCGAGAATCGTATTCTCAACCCGCCATAAACACATCCCTTTCATCAAACGCTCTCACCTCCTCTGTATCTTCCCTCA...

Protein

Download Protein FASTA

414 aa · LXL04_036902|LXL04_036902|OH1004|PROTEIN

MPPPLPSSSFTTGADLYSENSTLTLIPGLPDDLAALILAFLPYSHHGRLKSICKSWKQFFSSRIVFSTRHKHIPFIKRSHLLCIFPQDPSISSPYLFDPQNLAWCYLPPMPCNPHVYGLCNFTSVSHDSHLYVLGGSLFDTRSFPLDRPSPSSAAFRYDLVTQTWDSLPPMLSPRGSFACAAIPNTDRILVAGGGSRHTMFGAAGSRMSSVEMYDIGRNEWVAMDGLPRFRAGCVGFMVGKEFWVMGGYGESRTILGVFP...

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_036902`
TK1151 ID	TkA04G017990
OH-1004 ID	LXL04_036902
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	100.000
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

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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_036902

Location Chr08:49936651-49937895 (+)

Description Similar to OR23: F-box/kelch-repeat protein OR23

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g03030`	F-box/kelch-repeat protein OR23.	No verified direct reference in this release
`At2g24540`	Component of SCF (ASK-cullin-F-box) E3 ubiquitin ligase complexes, which may mediate the ubiquitination and subsequent proteasomal degradation of target proteins (By similarity).	No verified direct reference in this release
`At3g63220`	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
`At1g16250`	F-box/kelch-repeat protein At1g16250.	No verified direct reference in this release
`At1g67480`	F-box/kelch-repeat protein At1g67480.	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_036902 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006995 cellular response to nitrogen starvation Biological Process

GO:0009585 red, far-red light phototransduction Biological Process

GO:0010017 red or far-red light signaling pathway Biological Process

GO:0016567 protein ubiquitination Biological Process

GO:0005737 cytoplasm Cellular Component

GO:0009507 chloroplast Cellular Component

KEGG gene cross-reference

ath:AT1G16250

ath:AT1G67480

ath:AT2G24540

ath:AT3G63220

ath:AT4G03030

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.

Nucleus0.775

Rank 1 · LXL04_036902 · OH-1004

Cytoplasm0.300

Rank 2 · LXL04_036902 · OH-1004

Cell membrane0.036

Rank 3 · LXL04_036902 · OH-1004

Endoplasmic reticulum0.032

Rank 4 · LXL04_036902 · OH-1004

Mitochondrion0.024

Rank 5 · LXL04_036902 · 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.

PF00646.39F-box27-65 aa

PF24981.2Beta-prop_ATRN-LZTR190-249 aa

PF13415.13Beta-prop_FBX4297-254 aa

PF01344.32Kelch_1120-171 aa

PF24681.2Kelch_KLHDC2_KLHL20_DRC7122-357 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_036902	`PF00646.39`	F-box	27	65	3.9e-08	33.6
LXL04_036902	`PF24981.2`	Beta-prop_ATRN-LZTR1	90	249	1.6e-11	44.7
LXL04_036902	`PF13415.13`	Beta-prop_FBX42	97	254	4e-09	37.1
LXL04_036902	`PF01344.32`	Kelch_1	120	171	6.4e-19	67.8
LXL04_036902	`PF24681.2`	Kelch_KLHDC2_KLHL20_DRC7	122	357	7.2e-13	49.0

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
`Q0V7S6`	Arabidopsis thaliana	F-box/kelch-repeat protein OR23	58.111%	Swiss-Prot	strong database homology
`Q8LAW2`	Arabidopsis thaliana	F-box protein AFR	28.462%	Swiss-Prot	weak database homology
`Q9M1W7`	Arabidopsis thaliana	F-box/kelch-repeat protein SKIP30	27.039%	Swiss-Prot	weak database homology
`Q0WW40`	Arabidopsis thaliana	F-box/kelch-repeat protein At1g16250	24.432%	Swiss-Prot	weak database homology
`Q9CAG8`	Arabidopsis thaliana	F-box/kelch-repeat protein At1g67480	28.571%	Swiss-Prot	weak database homology

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