LXL04_038558 | RubberDandelionOmics

Gene overview

LXL04_038558

Reference: OH-1004 Chr: Chr09 Coordinates: 43900744-43901555 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

609 bp · LXL04_038558|LXL04_038558|OH1004|cDNA

ATGACGTCAATGTTGGGTTCTACTTCCACCCCTTTATCTCGAATCTTCCCACCGTCAATACTCAATCGCAGCAATCTCTTCACCACCCATTTGAAATCGAGTCGAGATTCGTACAAGAAAATCGTCAATTTTGCCGGAATAAGGTTTGGGTCTGTTACCCGGGTTCCATATCGAAGTAACAGAGGGTTTAGAAGCGGAATTGTGGCTATGGCAGGTTCGGATGCCGTTCAGAAATCGGAGGACGAGTGGCGTGCGGTTCT...

CDS

Download CDS FASTA

609 bp · LXL04_038558|LXL04_038558|OH1004|CDS

ATGACGTCAATGTTGGGTTCTACTTCCACCCCTTTATCTCGAATCTTCCCACCGTCAATACTCAATCGCAGCAATCTCTTCACCACCCATTTGAAATCGAGTCGAGATTCGTACAAGAAAATCGTCAATTTTGCCGGAATAAGGTTTGGGTCTGTTACCCGGGTTCCATATCGAAGTAACAGAGGGTTTAGAAGCGGAATTGTGGCTATGGCAGGTTCGGATGCCGTTCAGAAATCGGAGGACGAGTGGCGTGCGGTTCT...

Protein

Download Protein FASTA

202 aa · LXL04_038558|LXL04_038558|OH1004|PROTEIN

MTSMLGSTSTPLSRIFPPSILNRSNLFTTHLKSSRDSYKKIVNFAGIRFGSVTRVPYRSNRGFRSGIVAMAGSDAVQKSEDEWRAVLSPEQFRILRQKGTEYPGTGQYNKFYEEGVYTCAGCGTPLYKSTTKFDSGCGWPAFYEGLPGAINRHADPDGMRVEITCAACGGHLGHVFKGEGFRTPTDERHCVNSISLKFTPEN

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_038558`
TK1151 ID	TkA04G441830
OH-1004 ID	LXL04_038558
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	100.000
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_038558

Location Chr09:43900744-43901555 (+)

Description Similar to MSRB2: Peptide methionine sulfoxide reductase B2, chloroplastic

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g21860`	Catalyzes the reduction of methionine sulfoxide (MetSO) to methionine in proteins.	The Arabidopsis plastidic methionine sulfoxide reductase B proteins. Sequence and activity characteristics, comparison of the expression with plastidic methionine sulfoxide reductase A, and induction by photooxidative stress.2005 · DOI: 10.1104/pp.105.062430 Specificity of thioredoxins and glutaredoxins as electron donors to two distinct classes of Arabidopsis plastidial methionine sulfoxide reductases B.2007 · DOI: 10.1016/j.febslet.2007.07.081 Regeneration mechanisms of Arabidopsis thaliana methionine sulfoxide reductases B by glutaredoxins and thioredoxins.2009 · DOI: 10.1074/jbc.m109.015487 Arabidopsis thaliana plastidial methionine sulfoxide reductases B, MSRBs, account for most leaf peptide MSR activity and are essential for growth under environmental constraints through a role in the preservation of photosystem antennae.2010 · DOI: 10.1111/j.1365-313x.2009.04053.x
`At4g04800`	Catalyzes the reduction of methionine sulfoxide (MetSO) to methionine in proteins.	Role of the methionine sulfoxide reductase MsrB3 in cold acclimation in Arabidopsis.2007 · DOI: 10.1093/pcp/pcm143
`At4g04830`	Catalyzes the reduction of methionine sulfoxide (MetSO) to methionine in proteins.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os03g0360700`	Catalyzes the reduction of methionine sulfoxide (MetSO) to methionine in proteins.	No verified direct reference in this release
`Os05g0404200`	Catalyzes the reduction of methionine sulfoxide (MetSO) to methionine in proteins.	No verified direct reference in this release

Functional annotation source

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Functional annotation source: OH1004 · LXL04_038558 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006979 response to oxidative stress Biological Process

GO:0009631 cold acclimation Biological Process

GO:0030091 protein repair Biological Process

GO:0034599 cellular response to oxidative stress Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005783 endoplasmic reticulum Cellular Component

GO:0005829 cytosol Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0009570 chloroplast stroma Cellular Component

GO:0033743 peptide-methionine (R)-S-oxide reductase activity Molecular Function

GO:0046872 metal ion binding Molecular Function

KEGG gene cross-reference

ath:AT4G04800

ath:AT4G04830

ath:AT4G21860

dosa:Os03g0360700

dosa:Os05g0404200

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.

Plastid0.982

Rank 1 · LXL04_038558 · OH-1004

Mitochondrion0.034

Rank 2 · LXL04_038558 · OH-1004

Cytoplasm0.018

Rank 3 · LXL04_038558 · OH-1004

Nucleus0.014

Rank 4 · LXL04_038558 · OH-1004

Peroxisome0.012

Rank 5 · LXL04_038558 · 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.

PF01641.27SelR87-200 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_038558	`PF01641.27`	SelR	87	200	1.6e-45	154.6

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
`Q9C5C8`	Arabidopsis thaliana	Peptide methionine sulfoxide reductase B2, chloroplastic	80.690%	Swiss-Prot	strong database homology
`Q9M0Z6`	Arabidopsis thaliana	Peptide methionine sulfoxide reductase B3	77.444%	Swiss-Prot	moderate database homology
`Q9ZS91`	Arabidopsis thaliana	Peptide methionine sulfoxide reductase B5	78.788%	Swiss-Prot	moderate database homology
`Q10L32`	Oryza sativa subsp. japonica	Peptide methionine sulfoxide reductase B5	81.343%	Swiss-Prot	moderate database homology
`Q6AUK5`	Oryza sativa subsp. japonica	Peptide methionine sulfoxide reductase B3, chloroplastic	84.000%	Swiss-Prot	moderate database homology

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