LXL04_026767 | RubberDandelionOmics

Gene overview

LXL04_026767

Reference: OH-1004 Chr: Chr06 Coordinates: 2669797-2672871 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1020 bp · LXL04_026767|LXL04_026767|OH1004|cDNA

ATGACTCTTCTGCTACAAAATCTCCCGCCGGTACCTTCATCGACTCCTCCCCTTCACTACACAAGATCTCACTCACTTGTGTGTGGTGTATCAAGTAGTAACACCGATAAACCTAGAATCAAACCCAAAATAACCAGAATCAAAATTAAAGAACCCGACGACTACCACGCAACTCTCAAAGCTCTCAATTCCAAAGGCCGCTTGCCTCGGAAAGCCCTTGGCCAGCATTACATGGTAAACAATGAAGTAAATGAACAGCT...

CDS

Download CDS FASTA

1020 bp · LXL04_026767|LXL04_026767|OH1004|CDS

ATGACTCTTCTGCTACAAAATCTCCCGCCGGTACCTTCATCGACTCCTCCCCTTCACTACACAAGATCTCACTCACTTGTGTGTGGTGTATCAAGTAGTAACACCGATAAACCTAGAATCAAACCCAAAATAACCAGAATCAAAATTAAAGAACCCGACGACTACCACGCAACTCTCAAAGCTCTCAATTCCAAAGGCCGCTTGCCTCGGAAAGCCCTTGGCCAGCATTACATGGTAAACAATGAAGTAAATGAACAGCT...

Protein

Download Protein FASTA

339 aa · LXL04_026767|LXL04_026767|OH1004|PROTEIN

MTLLLQNLPPVPSSTPPLHYTRSHSLVCGVSSSNTDKPRIKPKITRIKIKEPDDYHATLKALNSKGRLPRKALGQHYMVNNEVNEQLVNAANVGDGDMVLEIGPGTGSLTNVLVESGATILAIEKDPYMAALVRDRFASTHRVKVIPEDFTRCHLRSHLSSFMETDSSNSNSYAKVVANIPFNISSDVVKQLLPMGDIFSEVVLLLQEEAALRMVDASLRTSEYRPINIFINFYSDPEYKFKVPRENFFPQPKVDAAVVV...

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_026767`
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_026767

Location Chr06:2669797-2672871 (-)

Description Similar to PFC1: Ribosomal RNA small subunit methyltransferase, chloroplastic

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g01860`	Required for methylation of the 3' adenosines in the small subunit of plastid rRNA.	Chloroplast development at low temperatures requires a homolog of DIM1, a yeast gene encoding the 18S rRNA dimethylase.1998 · DOI: 10.1105/tpc.10.5.699

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_026767 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009409 response to cold Biological Process

GO:0031167 rRNA methylation Biological Process

GO:0005739 mitochondrion Cellular Component

GO:0005829 cytosol Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0000179 rRNA (adenine-N6,N6-)-dimethyltransferase activity Molecular Function

GO:0003723 RNA binding Molecular Function

GO:0016422 mRNA (2'-O-methyladenosine-N6-)-methyltransferase activity Molecular Function

GO:0052908 16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase activity Molecular Function

KEGG gene cross-reference

ana:alr3229

ath:AT1G01860

cmu:TC_0633

mta:Moth_0052

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.

Plastid0.652

Rank 1 · LXL04_026767 · OH-1004

Mitochondrion0.357

Rank 2 · LXL04_026767 · OH-1004

Nucleus0.038

Rank 3 · LXL04_026767 · OH-1004

Cytoplasm0.027

Rank 4 · LXL04_026767 · OH-1004

Cell membrane0.007

Rank 5 · LXL04_026767 · 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.

PF00398.27RrnaAD70-335 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_026767	`PF00398.27`	RrnaAD	70	335	4.6e-44	151.3

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`O65090`	Arabidopsis thaliana	Ribosomal RNA small subunit methyltransferase, chloroplastic	71.429%	Swiss-Prot	strong database homology

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