LXL04_003228 | RubberDandelionOmics

Gene overview

LXL04_003228

Reference: OH-1004 Chr: Chr01 Coordinates: 71484549-71488427 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1205 bp · LXL04_003228|LXL04_003228|OH1004|cDNA

ATTCTTTTTATTCACATCAAGGCATGAAGAAATCCGAACGACCAAAGGCATCAAAAGGGGAAGATGGGGTCGATTTAATCAGTAACATGCCGGATGCTATTCTTGTTTTGATTCTTTCACGTCTTTCATCCACTGAAGAACAAATTCGAAGCAGCATTTTGTCCAGAAGATGGAGGTATCTGTGGACTGCAGTTCCCTCAGTAGACATGCGGTTATTATCCAGAGAAGAATCCAAACAAAGCGAATTTAAAGAGTTTATG...

CDS

Download CDS FASTA

1149 bp · LXL04_003228|LXL04_003228|OH1004|CDS

ATGAAGAAATCCGAACGACCAAAGGCATCAAAAGGGGAAGATGGGGTCGATTTAATCAGTAACATGCCGGATGCTATTCTTGTTTTGATTCTTTCACGTCTTTCATCCACTGAAGAACAAATTCGAAGCAGCATTTTGTCCAGAAGATGGAGGTATCTGTGGACTGCAGTTCCCTCAGTAGACATGCGGTTATTATCCAGAGAAGAATCCAAACAAAGCGAATTTAAAGAGTTTATGTATTGGGTTTTAGCAAGCAAAAC...

Protein

Download Protein FASTA

382 aa · LXL04_003228|LXL04_003228|OH1004|PROTEIN

MKKSERPKASKGEDGVDLISNMPDAILVLILSRLSSTEEQIRSSILSRRWRYLWTAVPSVDMRLLSREESKQSEFKEFMYWVLASKTVNLDSFRLSFYKWDSIATVWRWVHVAVTRNVKEIDLSFGYKEETEAIELPCYLVSCGSLEVLRLNLKNHDLSLPRFVGFPALRVLHLNNVDLQQDDDDDLVNGFLKSCPLLEDLCLIDCLLGELACISSPKLKRLSIIYWDDVVCHSIKISCPKLVDLDLGGIWEGMFDGISH...

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_003228`
TK1151 ID	TkA01G383920
OH-1004 ID	LXL04_003228
Relationship / confidence	Non Reciprocal Best Hit / Complex relationship
Protein identity (%)	71.900
Protein coverage (%)	TK1151 97.544 / OH-1004 73.298 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_003228

Location Chr01:71484549-71488427 (+)

Description Similar to At4g00160: F-box/FBD/LRR-repeat protein At4g00160

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g00160`	F-box/FBD/LRR-repeat protein At4g00160.	No verified direct reference in this release
`At1g69630`	F-box/LRR-repeat protein 13.	No verified direct reference in this release
`At2g04230`	F-box/FBD/LRR-repeat protein At2g04230.	No verified direct reference in this release
`At3g52680`	F-box/FBD/LRR-repeat protein At3g52680.	No verified direct reference in this release
`At5g56420`	F-box/FBD/LRR-repeat protein At5g56420.	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_003228 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0005634 nucleus Cellular Component

GO:0005739 mitochondrion Cellular Component

KEGG gene cross-reference

ath:AT1G69630

ath:AT2G04230

ath:AT3G52680

ath:AT4G00160

ath:AT5G56420

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.

Nucleus0.807

Rank 1 · LXL04_003228 · OH-1004

Cytoplasm0.204

Rank 2 · LXL04_003228 · OH-1004

Cell membrane0.058

Rank 3 · LXL04_003228 · OH-1004

Endoplasmic reticulum0.052

Rank 4 · LXL04_003228 · OH-1004

Plastid0.021

Rank 5 · LXL04_003228 · 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-box19-57 aa

PF23622.2LRR_At1g61320_AtMIF186-301 aa

PF24758.2LRR_At5g56370108-247 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_003228	`PF00646.39`	F-box	19	57	7.4e-06	26.4
LXL04_003228	`PF23622.2`	LRR_At1g61320_AtMIF1	86	301	9.3e-13	49.0
LXL04_003228	`PF24758.2`	LRR_At5g56370	108	247	8.5e-18	65.6

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
`Q8LF09`	Arabidopsis thaliana	F-box/FBD/LRR-repeat protein At4g00160	28.739%	Swiss-Prot	weak database homology
`Q9FWZ1`	Arabidopsis thaliana	F-box/LRR-repeat protein 13	33.333%	Swiss-Prot	moderate database homology
`Q6NKX3`	Arabidopsis thaliana	F-box/FBD/LRR-repeat protein At2g04230	35.023%	Swiss-Prot	moderate database homology
`Q9LXJ6`	Arabidopsis thaliana	F-box/FBD/LRR-repeat protein At3g52680	29.213%	Swiss-Prot	weak database homology
`Q9FM89`	Arabidopsis thaliana	F-box/FBD/LRR-repeat protein At5g56420	32.129%	Swiss-Prot	moderate database homology

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