LXL04_014012 | RubberDandelionOmics

Gene overview

LXL04_014012

Reference: OH-1004 Chr: Chr03 Coordinates: 40483091-40485800 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2337 bp · LXL04_014012|LXL04_014012|OH1004|cDNA

ATGGAGAAGGTATACGTGGCAATCGGGAATGACGTACAAGAAGGTTTTGCGACTCTCGAATGGACGCTAAGAAAATGGTCTTCTTCTCCAATCTCCATTGTTATCCTTCATGCAGATATAAACAGGGACTATGTTTACACATATTATGGAAAACTCCCTGCGAGTTATGTGAACGATGAGAGTGTCGACTTACTTAATAAGTATCAACAAGGAAAACTGAACAAGATTCTACAGCAGTACATAGATTTTTGTGGCGAGGT...

CDS

Download CDS FASTA

2337 bp · LXL04_014012|LXL04_014012|OH1004|CDS

ATGGAGAAGGTATACGTGGCAATCGGGAATGACGTACAAGAAGGTTTTGCGACTCTCGAATGGACGCTAAGAAAATGGTCTTCTTCTCCAATCTCCATTGTTATCCTTCATGCAGATATAAACAGGGACTATGTTTACACATATTATGGAAAACTCCCTGCGAGTTATGTGAACGATGAGAGTGTCGACTTACTTAATAAGTATCAACAAGGAAAACTGAACAAGATTCTACAGCAGTACATAGATTTTTGTGGCGAGGT...

Protein

Download Protein FASTA

778 aa · LXL04_014012|LXL04_014012|OH1004|PROTEIN

MEKVYVAIGNDVQEGFATLEWTLRKWSSSPISIVILHADINRDYVYTYYGKLPASYVNDESVDLLNKYQQGKLNKILQQYIDFCGEVKTETLNIEKYDEPIHTRILQLISGLRICKLVMGATFFKSFSSGKFGNLVMGLKKLQQKKPDFCEFYLISGGKLFFLKEENNEGFIEDDQGMTIAKLNKKRGSFKGWIGKMYPKNTRDSSSSSSSSADSPSIWERSTEEIEEYFNQLLNSNEDEEESETGQASNAIFENNEFTE...

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_014012`
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_014012

Location Chr03:40483091-40485800 (-)

Description Similar to PUB50: Putative U-box domain-containing protein 50

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g65500`	Functions as an E3 ubiquitin ligase.	No verified direct reference in this release
`At2g45910`	Functions as an E3 ubiquitin ligase.	No verified direct reference in this release
`At2g19410`	Functions as an E3 ubiquitin ligase.	No verified direct reference in this release
`At5g61550`	Functions as an E3 ubiquitin ligase.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os06g0163000`	Functions as an E3 ubiquitin ligase.	MODD Mediates Deactivation and Degradation of OsbZIP46 to Negatively Regulate ABA Signaling and Drought Resistance in Rice.2016 · DOI: 10.1105/tpc.16.00171

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_014012 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0016567 protein ubiquitination Biological Process

GO:0005634 nucleus Cellular Component

GO:0005829 cytosol Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0004672 protein kinase activity Molecular Function

GO:0004674 protein serine/threonine kinase activity Molecular Function

GO:0005524 ATP binding Molecular Function

GO:0061630 ubiquitin protein ligase activity Molecular Function

GO:0106310 protein serine kinase activity Molecular Function

KEGG gene cross-reference

ath:AT2G19410

ath:AT2G45910

ath:AT5G61550

ath:AT5G65500

dosa:Os06g0163000

osa:4340220

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.

Cytoplasm0.485

Rank 1 · LXL04_014012 · OH-1004

Nucleus0.328

Rank 2 · LXL04_014012 · OH-1004

Cell membrane0.325

Rank 3 · LXL04_014012 · OH-1004

Endoplasmic reticulum0.048

Rank 4 · LXL04_014012 · OH-1004

Golgi apparatus0.041

Rank 5 · LXL04_014012 · 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.

PF07714.24PK_Tyr_Ser-Thr459-595 aa

PF00069.32Pkinase459-592 aa

PF04564.22U-box703-774 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_014012	`PF07714.24`	PK_Tyr_Ser-Thr	459	595	5.4e-21	75.8
LXL04_014012	`PF00069.32`	Pkinase	459	592	3.7e-12	46.9
LXL04_014012	`PF04564.22`	U-box	703	774	1.6e-16	60.9

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q9FGD7`	Arabidopsis thaliana	Putative U-box domain-containing protein 50	41.614%	Swiss-Prot	moderate database homology
`Q8GUH1`	Arabidopsis thaliana	U-box domain-containing protein 33	27.873%	Swiss-Prot	weak database homology
`Q8S8S7`	Arabidopsis thaliana	U-box domain-containing protein 34	35.938%	Swiss-Prot	weak database homology
`Q9FKG6`	Arabidopsis thaliana	U-box domain-containing protein 52	32.483%	Swiss-Prot	weak database homology
`Q5WA76`	Oryza sativa subsp. japonica	U-box domain-containing protein 70	33.603%	Swiss-Prot	moderate database homology

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