LXL04_003223 | RubberDandelionOmics

Gene overview

LXL04_003223

Reference: OH-1004 Chr: Chr01 Coordinates: 71344318-71349084 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1684 bp · LXL04_003223|LXL04_003223|OH1004|cDNA

TACCTTTTTTTGTTCACATCAAGGCATGGAGAAATCCGAACGATCAAAGGCATCAAAAGGGGAAGATGGGGCTGATTTGATCAGTAAAATACCGGATGCTATTATTATTTTGATTCTCTCACGTCTTTCATCCACTGAAGAACAAATCCGAAGCAGCATTTTGTCCCGACGCTGGAGGTATTTGTGGACTGCAATTCCCTCAGTGGACATGGAATTTGTATCTGAAGGAAAACTCAAAAAATGTGAATTTAAAGAGTTTG...

CDS

Download CDS FASTA

1659 bp · LXL04_003223|LXL04_003223|OH1004|CDS

ATGGAGAAATCCGAACGATCAAAGGCATCAAAAGGGGAAGATGGGGCTGATTTGATCAGTAAAATACCGGATGCTATTATTATTTTGATTCTCTCACGTCTTTCATCCACTGAAGAACAAATCCGAAGCAGCATTTTGTCCCGACGCTGGAGGTATTTGTGGACTGCAATTCCCTCAGTGGACATGGAATTTGTATCTGAAGGAAAACTCAAAAAATGTGAATTTAAAGAGTTTGTGTATTGGGTTTTAGCAAGTAAAAC...

Protein

Download Protein FASTA

552 aa · LXL04_003223|LXL04_003223|OH1004|PROTEIN

MEKSERSKASKGEDGADLISKIPDAIIILILSRLSSTEEQIRSSILSRRWRYLWTAIPSVDMEFVSEGKLKKCEFKEFVYWVLASKTVDLDRFRLFLNDSDIMSTVWRWVHLAVTRNVKQIDISFSTLKDTKPIELPHYLVSCGSLEVLRLDLKNQSLSLPRFLGFSALRVLDLTYVDLPEDGDLIKDFLKNCPLLEDLSLSCCFIGELVCISCPNLKRLSIVNWDDVGCHGFKICCPKLVDLELGGRILFGNTDPELFH...

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_003223`
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_003223

Location Chr01:71344318-71349084 (+)

Description Similar to At4g10400: FBD-associated F-box protein At4g10400

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g10400`	FBD-associated F-box protein At4g10400.	No verified direct reference in this release
`At1g69630`	F-box/LRR-repeat protein 13.	No verified direct reference in this release
`At1g55030`	Putative FBD-associated F-box protein At1g55030.	No verified direct reference in this release
`At3g28410`	Putative F-box/LRR-repeat protein At3g28410.	No verified direct reference in this release
`At5g02700`	Putative F-box/LRR-repeat protein At5g02700.	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_003223 · 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:AT1G55030

ath:AT1G69630

ath:AT3G28410

ath:AT4G10400

ath:AT5G02700

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.

Nucleus0.548

Rank 1 · LXL04_003223 · OH-1004

Cytoplasm0.526

Rank 2 · LXL04_003223 · OH-1004

Endoplasmic reticulum0.063

Rank 3 · LXL04_003223 · OH-1004

Cell membrane0.059

Rank 4 · LXL04_003223 · OH-1004

Mitochondrion0.026

Rank 5 · LXL04_003223 · 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-box19-55 aa

PF23622.2LRR_At1g61320_AtMIF186-298 aa

PF24758.2LRR_At5g56370108-223 aa

PF00646.39F-box396-434 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_003223	`PF00646.39`	F-box	19	55	3.5e-09	36.9
LXL04_003223	`PF23622.2`	LRR_At1g61320_AtMIF1	86	298	5.9e-11	43.1
LXL04_003223	`PF24758.2`	LRR_At5g56370	108	223	1.5e-16	61.5
LXL04_003223	`PF00646.39`	F-box	396	434	3.5e-09	36.9

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
`Q9SV82`	Arabidopsis thaliana	FBD-associated F-box protein At4g10400	30.263%	Swiss-Prot	moderate database homology
`Q9FWZ1`	Arabidopsis thaliana	F-box/LRR-repeat protein 13	30.493%	Swiss-Prot	weak database homology
`Q9C7M1`	Arabidopsis thaliana	Putative FBD-associated F-box protein At1g55030	27.246%	Swiss-Prot	weak database homology
`Q9LSJ3`	Arabidopsis thaliana	Putative F-box/LRR-repeat protein At3g28410	30.804%	Swiss-Prot	weak database homology
`Q9LZ15`	Arabidopsis thaliana	Putative F-box/LRR-repeat protein At5g02700	30.189%	Swiss-Prot	weak database homology

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