LXL04_027629 | RubberDandelionOmics

Gene overview

LXL04_027629

Reference: OH-1004 Chr: Chr06 Coordinates: 20672347-20673279 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

537 bp · LXL04_027629|LXL04_027629|OH1004|cDNA

ATGGCCTCTTCATCAATCGTAATCAAGGTCGATTTTGGGGAAACACTCAGGCGATTCAATGCATCTATCAACGACAAGAAACTTGCTCTCGGCTTTGAAGCTTTAAGGACAAAGATCCGTAATCTCTTCAACTTCAGTTCTGATGCTGCTTTTACTCTCACCTACGTTGATGAAGATGGAGATGCTGTTACTCTTGCTGCTGACGATGATCTTAATGACGTCGGTCTGAACCCATTAAGACTTACTGTCAAGCTAGAAAA...

CDS

Download CDS FASTA

537 bp · LXL04_027629|LXL04_027629|OH1004|CDS

ATGGCCTCTTCATCAATCGTAATCAAGGTCGATTTTGGGGAAACACTCAGGCGATTCAATGCATCTATCAACGACAAGAAACTTGCTCTCGGCTTTGAAGCTTTAAGGACAAAGATCCGTAATCTCTTCAACTTCAGTTCTGATGCTGCTTTTACTCTCACCTACGTTGATGAAGATGGAGATGCTGTTACTCTTGCTGCTGACGATGATCTTAATGACGTCGGTCTGAACCCATTAAGACTTACTGTCAAGCTAGAAAA...

Protein

Download Protein FASTA

178 aa · LXL04_027629|LXL04_027629|OH1004|PROTEIN

MASSSIVIKVDFGETLRRFNASINDKKLALGFEALRTKIRNLFNFSSDAAFTLTYVDEDGDAVTLAADDDLNDVGLNPLRLTVKLEKGNPIGSIGTSSTPMRSPEPQLPFGPFPSGLSEFLKSMPEPLRDQLTKLPLELASKTTSSTPVISELAQKLTAAYLKQSSGSMAAPRANTQS

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_027629`
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_027629

Location Chr06:20672347-20673279 (+)

Description Similar to JOKA2: Protein JOKA2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g24690`	Autophagic substrate degraded in the vacuole by non-selective autophagy.	Plant NBR1 is a selective autophagy substrate and a functional hybrid of the mammalian autophagic adapters NBR1 and p62/SQSTM1.2011 · DOI: 10.4161/auto.7.9.16389 NBR1-mediated selective autophagy targets insoluble ubiquitinated protein aggregates in plant stress responses.2013 · DOI: 10.1371/journal.pgen.1003196 E3 ubiquitin ligase CHIP and NBR1-mediated selective autophagy protect additively against proteotoxicity in plant stress responses.2014 · DOI: 10.1371/journal.pgen.1004116

Rice

No hit for this species in the current source table.

Functional annotation source

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Functional annotation source: OH1004 · LXL04_027629 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006914 autophagy Biological Process

GO:0015031 protein transport Biological Process

GO:0050832 defense response to fungus Biological Process

GO:0051258 protein polymerization Biological Process

GO:0071211 protein targeting to vacuole involved in autophagy Biological Process

GO:0005737 cytoplasm Cellular Component

GO:0005773 vacuole Cellular Component

GO:0005776 autophagosome Cellular Component

GO:0031410 cytoplasmic vesicle Cellular Component

GO:0008270 zinc ion binding Molecular Function

GO:0043130 ubiquitin binding Molecular Function

KEGG gene cross-reference

ath:AT4G24690

sot:102582603

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.

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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.

Cytoplasm0.585

Rank 1 · LXL04_027629 · OH-1004

Nucleus0.462

Rank 2 · LXL04_027629 · OH-1004

Cell membrane0.064

Rank 3 · LXL04_027629 · OH-1004

Endoplasmic reticulum0.059

Rank 4 · LXL04_027629 · OH-1004

Mitochondrion0.057

Rank 5 · LXL04_027629 · 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.

PF00564.31PB16-73 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_027629	`PF00564.31`	PB1	6	73	1.6e-09	38.3

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
`Q9SB64`	Arabidopsis thaliana	Protein NBR1 homolog	37.580%	Swiss-Prot	moderate database homology

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