LXL04_017077 | RubberDandelionOmics

Gene overview

LXL04_017077

Reference: OH-1004 Chr: Chr03 Coordinates: 140643634-140650282 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2043 bp · LXL04_017077|LXL04_017077|OH1004|cDNA

ATGACAATTCGGGGAAACAGTATAATCGACATACAAATTAGGACTCGTCGTCATAGGGAGCAGTTTGGAAATGTCATCTTGTTCATCAAACAGATGCTTGTCAGTATCGATCTACAGTTCTACACAATCCGCGATACATCACATATCCACCATCTCCCGATACTTTTCATGGGTGGTTTACTAAGCGTAACCAGCTCTAAACCAAACGAATCCCTCCAAATCTCCCAATCCGAATCCAACAAGAGACAGAAAACATCACC...

CDS

Download CDS FASTA

2043 bp · LXL04_017077|LXL04_017077|OH1004|CDS

ATGACAATTCGGGGAAACAGTATAATCGACATACAAATTAGGACTCGTCGTCATAGGGAGCAGTTTGGAAATGTCATCTTGTTCATCAAACAGATGCTTGTCAGTATCGATCTACAGTTCTACACAATCCGCGATACATCACATATCCACCATCTCCCGATACTTTTCATGGGTGGTTTACTAAGCGTAACCAGCTCTAAACCAAACGAATCCCTCCAAATCTCCCAATCCGAATCCAACAAGAGACAGAAAACATCACC...

Protein

Download Protein FASTA

680 aa · LXL04_017077|LXL04_017077|OH1004|PROTEIN

MTIRGNSIIDIQIRTRRHREQFGNVILFIKQMLVSIDLQFYTIRDTSHIHHLPILFMGGLLSVTSSKPNESLQISQSESNKRQKTSPILWDDNPRLIPNLPDEISLLILARLPRICYLTVKSVSRTWKLAVTTPEIYKVRKELGTTEEWLYILTKNQNDRLFWHALDPLSKKWQKLPPIPDLPSQHPPKHKHKWGPSARLADTVRGWLGRTNGPDQIPLCGCAIGAVDGSLYMLGGFSKSTAVNSVYKYDPVSNKWTESS...

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_017077`
Source version	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_017077

Location Chr03:140643634-140650282 (+)

Description Similar to At1g22040: F-box/kelch-repeat protein At1g22040

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g22040`	F-box/kelch-repeat protein At1g22040.	No verified direct reference in this release
`At1g55270`	F-box/kelch-repeat protein At1g55270.	No verified direct reference in this release
`At1g30090`	F-box/kelch-repeat protein At1g30090.	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
`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_017077 · 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:2000762 regulation of phenylpropanoid metabolic process Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0009507 chloroplast Cellular Component

KEGG gene cross-reference

ath:AT1G22040

ath:AT1G30090

ath:AT1G55270

ath:AT1G67480

ath:AT2G24540

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.

Nucleus0.438

Rank 1 · LXL04_017077 · OH-1004

Cytoplasm0.365

Rank 2 · LXL04_017077 · OH-1004

Cell membrane0.178

Rank 3 · LXL04_017077 · OH-1004

Endoplasmic reticulum0.084

Rank 4 · LXL04_017077 · OH-1004

Plastid0.055

Rank 5 · LXL04_017077 · 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-box97-138 aa

PF12937.13F-box-like97-138 aa

PF24681.2Kelch_KLHDC2_KLHL20_DRC7211-313 aa

PF01344.32Kelch_1218-262 aa

PF07646.22Kelch_2218-263 aa

PF13964.13Beta-prop_Calicin220-313 aa

PF25210.2Kelch_FKB95222-457 aa

PF01344.32Kelch_1266-314 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_017077	`PF00646.39`	F-box	97	138	8.8e-08	32.5
LXL04_017077	`PF12937.13`	F-box-like	97	138	8.3e-06	26.2
LXL04_017077	`PF24681.2`	Kelch_KLHDC2_KLHL20_DRC7	211	313	2.4e-13	50.6
LXL04_017077	`PF01344.32`	Kelch_1	218	262	1.3e-28	98.9
LXL04_017077	`PF07646.22`	Kelch_2	218	263	6.1e-16	58.2
LXL04_017077	`PF13964.13`	Beta-prop_Calicin	220	313	3.3e-10	40.2
LXL04_017077	`PF25210.2`	Kelch_FKB95	222	457	6e-19	69.4
LXL04_017077	`PF01344.32`	Kelch_1	266	314	1.3e-28	98.9
LXL04_017077	`PF07646.22`	Kelch_2	266	314	6.1e-16	58.2

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
`Q9LM55`	Arabidopsis thaliana	F-box/kelch-repeat protein At1g22040	57.113%	Swiss-Prot	moderate database homology
`Q93W93`	Arabidopsis thaliana	F-box/kelch-repeat protein At1g55270	27.727%	Swiss-Prot	weak database homology
`Q9C6Z0`	Arabidopsis thaliana	F-box/kelch-repeat protein At1g30090	28.783%	Swiss-Prot	weak database homology
`Q8LAW2`	Arabidopsis thaliana	F-box protein AFR	25.915%	Swiss-Prot	weak database homology
`Q9CAG8`	Arabidopsis thaliana	F-box/kelch-repeat protein At1g67480	27.397%	Swiss-Prot	weak database homology

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