LXL04_008891 | RubberDandelionOmics

Gene overview

LXL04_008891

Reference: OH-1004 Chr: Chr02 Coordinates: 111494555-111495936 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

819 bp · LXL04_008891|LXL04_008891|OH1004|cDNA

ATGTTTAGAAACCAGTACGACACCGACGTCACAACATGGTCGCCGGCGGGGCGGTTGTTTCAGGTAGAGTACGCCATGGAGGCTGTAAAGCAAGGATCGGCGGCCATTGGTCTCCGATCTAAGACGCACGTTGTTCTCGCTTGCGTCAACAAATCCAATTCGGAACTCTCATCGCATCAGAAAAAGATCTTCAAGGTCGACGACCACATCGGCGTCGCCATCGCTGGTCTCACCGCTGACGGCCGTGTTCTGTCCCGGTA...

CDS

Download CDS FASTA

819 bp · LXL04_008891|LXL04_008891|OH1004|CDS

ATGTTTAGAAACCAGTACGACACCGACGTCACAACATGGTCGCCGGCGGGGCGGTTGTTTCAGGTAGAGTACGCCATGGAGGCTGTAAAGCAAGGATCGGCGGCCATTGGTCTCCGATCTAAGACGCACGTTGTTCTCGCTTGCGTCAACAAATCCAATTCGGAACTCTCATCGCATCAGAAAAAGATCTTCAAGGTCGACGACCACATCGGCGTCGCCATCGCTGGTCTCACCGCTGACGGCCGTGTTCTGTCCCGGTA...

Protein

Download Protein FASTA

272 aa · LXL04_008891|LXL04_008891|OH1004|PROTEIN

MFRNQYDTDVTTWSPAGRLFQVEYAMEAVKQGSAAIGLRSKTHVVLACVNKSNSELSSHQKKIFKVDDHIGVAIAGLTADGRVLSRYMRSECINYGYTYESPLPVGRLVVQLADKAQVCTQRSWKRPYGVGLLVAGLDESGAHLYYNCPSGNYFEYQAFAIGSRSQAAKTYLERKFEKFTESSRDDLIKDALFAIRETLQGEKLTSSVCTVAVVGVGEAFSILDQATVQGLINEFEVSGEEGGAAAAVAGGGGGAAEEGG...

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_008891`
TK1151 ID	TkA03G315480
OH-1004 ID	LXL04_008891
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.300
Protein coverage (%)	TK1151 100.000 / OH-1004 100.000 Coverage and evidence Coverage is the aligned span of the best-scoring HSP divided by representative protein length. A homolog match does not establish functional validation.
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_008891

Location Chr02:111494555-111495936 (+)

Description Similar to PAF2: Proteasome subunit alpha type-1-B

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g47250`	The proteasome is a multicatalytic proteinase complex which is characterized by its ability to cleave peptides with Arg, Phe, Tyr, Leu, and Glu adjacent to the leaving group at neutral or slightly basic pH.	ARS5 is a component of the 26S proteasome complex, and negatively regulates thiol biosynthesis and arsenic tolerance in Arabidopsis.2009 · DOI: 10.1111/j.1365-313x.2009.03914.x
`At5g42790`	The proteasome is a multicatalytic proteinase complex which is characterized by its ability to cleave peptides with Arg, Phe, Tyr, Leu, and Glu adjacent to the leaving group at neutral or slightly basic pH.	ARS5 is a component of the 26S proteasome complex, and negatively regulates thiol biosynthesis and arsenic tolerance in Arabidopsis.2009 · DOI: 10.1111/j.1365-313x.2009.03914.x

Rice

Reference gene ID	Possible function	Papers / DOI
`Os02g0133800`	The proteasome is a multicatalytic proteinase complex which is characterized by its ability to cleave peptides with Arg, Phe, Tyr, Leu, and Glu adjacent to the leaving group at neutral or slightly basic pH.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_008891 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0002376 immune system process Biological Process

GO:0006511 ubiquitin-dependent protein catabolic process Biological Process

GO:0006979 response to oxidative stress Biological Process

GO:0010498 proteasomal protein catabolic process Biological Process

GO:0030163 protein catabolic process Biological Process

GO:0043161 proteasome-mediated ubiquitin-dependent protein catabolic process Biological Process

GO:0046685 response to arsenic-containing substance Biological Process

GO:0061136 regulation of proteasomal protein catabolic process Biological Process

GO:0000502 proteasome complex Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005654 nucleoplasm Cellular Component

GO:0005737 cytoplasm Cellular Component

KEGG gene cross-reference

ath:AT1G47250

ath:AT5G42790

ddi:DDB_G0282363

dosa:Os02g0133800

mmu:26440

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.

Cytoplasm0.636

Rank 1 · LXL04_008891 · OH-1004

Nucleus0.627

Rank 2 · LXL04_008891 · OH-1004

Mitochondrion0.054

Rank 3 · LXL04_008891 · OH-1004

Cell membrane0.049

Rank 4 · LXL04_008891 · OH-1004

Endoplasmic reticulum0.040

Rank 5 · LXL04_008891 · 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.

PF10584.15Proteasome_A_N6-28 aa

PF00227.32Proteasome29-214 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_008891	`PF10584.15`	Proteasome_A_N	6	28	4.4e-14	52.5
LXL04_008891	`PF00227.32`	Proteasome	29	214	2.9e-57	194.1

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
`O23712`	Arabidopsis thaliana	Proteasome subunit alpha type-1-B	77.698%	Swiss-Prot	strong database homology
`P34066`	Arabidopsis thaliana	Proteasome subunit alpha type-1-A	76.259%	Swiss-Prot	strong database homology
`P52428`	Oryza sativa subsp. japonica	Proteasome subunit alpha type-1	75.210%	Swiss-Prot	strong database homology

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