LXL04_028330 | RubberDandelionOmics

Gene overview

LXL04_028330

Reference: OH-1004 Chr: Chr06 Coordinates: 38172986-38179142 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1041 bp · LXL04_028330|LXL04_028330|OH1004|cDNA

ATGAAGACTGATCGAGCAGGCGATGGTGGGTCTGAAACTCTGAATCGAATCACGAATCGCGAAAGCCAAGGGACTGCGTGCGATGGCTGGTGGTGGAACTGGGTGCGATGGCCGATGGTGTTCCCGAATTATTGGGAATTGGAACCGGAATTGCCGAAGGCAGTTCCCGAATATTGGGAATTGGAACCGGACTTGCCTgaggcagttccagttccagaaCCGCCAGTTCCGTGGCAGTTTCAGTTCTCAGTTCAGaagcG...

CDS

Download CDS FASTA

1041 bp · LXL04_028330|LXL04_028330|OH1004|CDS

ATGAAGACTGATCGAGCAGGCGATGGTGGGTCTGAAACTCTGAATCGAATCACGAATCGCGAAAGCCAAGGGACTGCGTGCGATGGCTGGTGGTGGAACTGGGTGCGATGGCCGATGGTGTTCCCGAATTATTGGGAATTGGAACCGGAATTGCCGAAGGCAGTTCCCGAATATTGGGAATTGGAACCGGACTTGCCTGAGGCAGTTCCAGTTCCAGAACCGCCAGTTCCGTGGCAGTTTCAGTTCTCAGTTCAGAAGCG...

Protein

Download Protein FASTA

346 aa · LXL04_028330|LXL04_028330|OH1004|PROTEIN

MKTDRAGDGGSETLNRITNRESQGTACDGWWWNWVRWPMVFPNYWELEPELPKAVPEYWELEPDLPEAVPVPEPPVPWQFQFSVQKREQKSGRISIDLVPPSPPISSSPSPAPLSHLRRQRTARQARSLMFRSSPCKAGAASRIQFFPLLASSGRRRLCCSDYLLSGTLFSLQTQVLSVVGLLQDDVDPMVSFMKVEKAPLESYTDIGGLDCLLNNLFSANIKKQTVFFLQTADVYSTSSAAEGCRCGPQTADVLASKKQ...

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_028330`
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_028330

Location Chr06:38172986-38179142 (-)

Description Similar to TBP2: 26S proteasome regulatory subunit 4 homolog

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g20140`	The 26S protease is involved in the ATP-dependent degradation of ubiquitinated proteins.	Arabidopsis RPT2a encoding the 26S proteasome subunit is required for various aspects of root meristem maintenance, and regulates gametogenesis redundantly with its homolog, RPT2b.2011 · DOI: 10.1093/pcp/pcr093 The RPT2 subunit of the 26S proteasome directs complex assembly, histone dynamics, and gametophyte and sporophyte development in Arabidopsis.2011 · DOI: 10.1105/tpc.111.089482
`At4g29040`	The 26S protease is involved in the ATP-dependent degradation of ubiquitinated proteins.	The HALTED ROOT gene encoding the 26S proteasome subunit RPT2a is essential for the maintenance of Arabidopsis meristems.2004 · DOI: 10.1242/dev.01096 26S proteasome regulatory particle mutants have increased oxidative stress tolerance.2008 · DOI: 10.1111/j.1365-313x.2007.03322.x Loss of 26S proteasome function leads to increased cell size and decreased cell number in Arabidopsis shoot organs.2009 · DOI: 10.1104/pp.109.135970 Regulation of leaf organ size by the Arabidopsis RPT2a 19S proteasome subunit.2009 · DOI: 10.1111/j.1365-313x.2009.03932.x Control of endoreduplication of trichome by RPT2a, a subunit of the 19S proteasome in Arabidopsis.2010 · DOI: 10.1007/s10265-010-0321-x Arabidopsis thaliana 26S proteasome subunits RPT2a and RPT5a are crucial for zinc deficiency-tolerance.2011 · DOI: 10.1271/bbb.100794 Arabidopsis RPT2a encoding the 26S proteasome subunit is required for various aspects of root meristem maintenance, and regulates gametogenesis redundantly with its homolog, RPT2b.2011 · DOI: 10.1093/pcp/pcr093 RPT2a, a 26S proteasome AAA-ATPase, is directly involved in Arabidopsis CC-NBS-LRR protein uni-1D-induced signaling pathways.2011 · DOI: 10.1093/pcp/pcr099 The RPT2 subunit of the 26S proteasome directs complex assembly, histone dynamics, and gametophyte and sporophyte development in Arabidopsis.2011 · DOI: 10.1105/tpc.111.089482 RPN1a, a 26S proteasome subunit, is required for innate immunity in Arabidopsis.2012 · DOI: 10.1111/j.1365-313x.2012.05048.x Arabidopsis RPT2a, 19S proteasome subunit, regulates gene silencing via DNA methylation.2012 · DOI: 10.1371/journal.pone.0037086 Proteomic analysis of the 26S proteasome reveals its direct interaction with transit peptides of plastid protein precursors for their degradation.2014 · DOI: 10.1021/pr401245g

Rice

Reference gene ID	Possible function	Papers / DOI
`Os07g0691800`	The 26S proteasome is involved in the ATP-dependent degradation of ubiquitinated proteins.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_028330 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000281 mitotic cytokinesis Biological Process

GO:0006511 ubiquitin-dependent protein catabolic process Biological Process

GO:0007292 female gamete generation Biological Process

GO:0009408 response to heat Biological Process

GO:0009933 meristem structural organization Biological Process

GO:0009965 leaf morphogenesis Biological Process

GO:0010015 root morphogenesis Biological Process

GO:0010078 maintenance of root meristem identity Biological Process

GO:0010229 inflorescence development Biological Process

GO:0010311 lateral root formation Biological Process

GO:0031503 protein-containing complex localization Biological Process

GO:0035266 meristem growth Biological Process

KEGG gene cross-reference

ath:AT2G20140

ath:AT4G29040

ddi:DDB_G0270784

dosa:Os07g0691800

sce:YDL007W

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.

Nucleus0.450

Rank 1 · LXL04_028330 · OH-1004

Cytoplasm0.368

Rank 2 · LXL04_028330 · OH-1004

Cell membrane0.153

Rank 3 · LXL04_028330 · OH-1004

Endoplasmic reticulum0.105

Rank 4 · LXL04_028330 · OH-1004

Mitochondrion0.071

Rank 5 · LXL04_028330 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

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Predicted Functional Domains

No result was found for this query.

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
`Q9SL67`	Arabidopsis thaliana	26S proteasome regulatory subunit 4 homolog B	58.333%	Swiss-Prot	weak database homology
`Q9SZD4`	Arabidopsis thaliana	26S proteasome regulatory subunit 4 homolog A	58.333%	Swiss-Prot	weak database homology
`P46466`	Oryza sativa subsp. japonica	26S proteasome regulatory subunit 4 homolog	60.000%	Swiss-Prot	weak database homology

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