LXL04_025410 | RubberDandelionOmics

Gene overview

LXL04_025410

Reference: OH-1004 Chr: Chr05 Coordinates: 111212005-111215284 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1575 bp · LXL04_025410|LXL04_025410|OH1004|cDNA

ATGGCTGATTACTCAAAGAAGGATTTGTTACAGCTGATTAAGAGAATTGGGGCTTATCTATCCACCAAGGTTTCAAAAATCTTAAATATTCAGGATCTGCGATCTTTTTGGGCTATAGCAGGATTCGCGGTTGCGGTAATTTTTACATGGAGAGCATTAAGAACGCCTAATGGATCTCAAAGAAGACAACCCAAACGTCAATCTCCCTCACATAACAATCAAAATTCGTCACCTTCTGGCGTTACTTCATCTTCCCAAGA...

CDS

Download CDS FASTA

1575 bp · LXL04_025410|LXL04_025410|OH1004|CDS

ATGGCTGATTACTCAAAGAAGGATTTGTTACAGCTGATTAAGAGAATTGGGGCTTATCTATCCACCAAGGTTTCAAAAATCTTAAATATTCAGGATCTGCGATCTTTTTGGGCTATAGCAGGATTCGCGGTTGCGGTAATTTTTACATGGAGAGCATTAAGAACGCCTAATGGATCTCAAAGAAGACAACCCAAACGTCAATCTCCCTCACATAACAATCAAAATTCGTCACCTTCTGGCGTTACTTCATCTTCCCAAGA...

Protein

Download Protein FASTA

524 aa · LXL04_025410|LXL04_025410|OH1004|PROTEIN

MADYSKKDLLQLIKRIGAYLSTKVSKILNIQDLRSFWAIAGFAVAVIFTWRALRTPNGSQRRQPKRQSPSHNNQNSSPSGVTSSSQDSTTQNATHEFFPPANATLGQIVRQRLNDGRKVTCRLLGVILEENTPEELQNQATVRSSVLEVLSEITKYSDLYLMERVLDDESEKRVLTTLEEAGVFTSGGLVKEKVLFCGTENGRMSFVRQLEPDWHIDSNPEITSQLARFIRQQVHISTKTERIASNIESCGPDCSHSSLF...

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_025410`
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_025410

Location Chr05:111212005-111215284 (+)

Description Similar to PEX22: Peroxisome biogenesis protein 22

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g21865`	Assists in the ubiquitination of peroxisomal proteins by anchoring ubiquitin-conjugating enzyme E2 PEX4 to the peroxisomal membrane.	Identification and functional characterization of Arabidopsis PEROXIN4 and the interacting protein PEROXIN22.2005 · DOI: 10.1105/tpc.105.035691 Peroxisome-associated matrix protein degradation in Arabidopsis.2009 · DOI: 10.1073/pnas.0811329106 The Structure of the Arabidopsis PEX4-PEX22 Peroxin Complex-Insights Into Ubiquitination at the Peroxisomal Membrane.2022 · DOI: 10.3389/fcell.2022.838923
`At5g18520`	Plays a role in plants and microbes interactions.	Two G-protein-coupled-receptor candidates, Cand2 and Cand7, are involved in Arabidopsis root growth mediated by the bacterial quorum-sensing signals N-acyl-homoserine lactones.2012 · DOI: 10.1016/j.bbrc.2011.12.066
`At5g02630`	G protein-coupled receptor.	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_025410 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0002237 response to molecule of bacterial origin Biological Process

GO:0007031 peroxisome organization Biological Process

GO:0007186 G protein-coupled receptor signaling pathway Biological Process

GO:0010015 root morphogenesis Biological Process

GO:0015031 protein transport Biological Process

GO:0072583 clathrin-dependent endocytosis Biological Process

GO:0072659 protein localization to plasma membrane Biological Process

GO:2001008 positive regulation of cellulose biosynthetic process Biological Process

GO:0005654 nucleoplasm Cellular Component

GO:0005739 mitochondrion Cellular Component

GO:0005769 early endosome Cellular Component

GO:0005778 peroxisomal membrane Cellular Component

KEGG gene cross-reference

ath:AT3G21865

ath:AT5G02630

ath:AT5G18520

mmu:277463

rno:311857

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.

Endoplasmic reticulum0.327

Rank 1 · LXL04_025410 · OH-1004

Golgi apparatus0.281

Rank 2 · LXL04_025410 · OH-1004

Cell membrane0.205

Rank 3 · LXL04_025410 · OH-1004

Cytoplasm0.181

Rank 4 · LXL04_025410 · OH-1004

Nucleus0.146

Rank 5 · LXL04_025410 · 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.

PF22978.2HAD_Pex22107-248 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_025410	`PF22978.2`	HAD_Pex22	107	248	6.7e-42	143.2

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
`Q9LSX7`	Arabidopsis thaliana	Ubiquitin-conjugating enzyme E2 enzyme activator PEX22	59.924%	Swiss-Prot	weak database homology
`F4JY11`	Arabidopsis thaliana	Protein CANDIDATE G PROTEIN-COUPLED RECEPTOR 7	36.293%	Swiss-Prot	weak database homology
`Q9LZ39`	Arabidopsis thaliana	Protein CANDIDATE G PROTEIN-COUPLED RECEPTOR 6	32.653%	Swiss-Prot	weak database homology

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