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Gene Card

Enter a TK1151 or OH-1004 gene ID to view sequences, annotations and analyses in the corresponding reference genome.
Flanking length, max 10000 bp
Examples TkA01G624900 LXL04_000258

Gene overview

TkA04G505410
Reference: TK1151 Chr: Chr04 Coordinates: 127657739-127658856 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

987 bp · TkA04G505410|TK1151|cDNA

ATGGCGGGAGGAAAAATCAAGAAAGAAAAGGCCCCACGTGGAGCTGTTGGCTCTTCTAATCACTACCAAGGAGGCATACAATTCCACAAGTCAAAAGGTCAACACATCCTCAAGAACCCTCTACTTGTTGATTCCATAGTCCAAAAAGCCGGCATCAACCCCACCGACATAGTTCTCGAGATCGGTCCGGGTACTGGTAATCTCACCAAGAAGCTTCTAGAAGCCGGCAAATCCGTTATCGCAGTTGAACTCGATCCACG...

CDS

Download CDS FASTA

987 bp · TkA04G505410|TK1151|CDS

ATGGCGGGAGGAAAAATCAAGAAAGAAAAGGCCCCACGTGGAGCTGTTGGCTCTTCTAATCACTACCAAGGAGGCATACAATTCCACAAGTCAAAAGGTCAACACATCCTCAAGAACCCTCTACTTGTTGATTCCATAGTCCAAAAAGCCGGCATCAACCCCACCGACATAGTTCTCGAGATCGGTCCGGGTACTGGTAATCTCACCAAGAAGCTTCTAGAAGCCGGCAAATCCGTTATCGCAGTTGAACTCGATCCACG...

Protein

Download Protein FASTA

328 aa · TkA04G505410|TK1151|PROTEIN

MAGGKIKKEKAPRGAVGSSNHYQGGIQFHKSKGQHILKNPLLVDSIVQKAGINPTDIVLEIGPGTGNLTKKLLEAGKSVIAVELDPRMVLELQRRFQGTPFSNRLKVIHGDVLKCDLPYFDICVANIPYQISSPLTFKLLNHKPSFRCAIIMFQREFAMRLVAQPSDSLYCRLSVNTQLLARVSHLLKVGKNNFRPPPKVDSSVVRIEPRKPPPVVNFKEWDGLVRICFTRKNKTLGSIFRQKREVAADVAVLGETGEME...

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.

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ID Mapping

Input IDTkA04G505410
TK1151 IDTkA04G505410
OH-1004 IDLXL04_026767
Relationship / confidenceMulti Source To Oh1004 / Complex relationship
Protein identity (%)33.500
Protein coverage (%)TK1151 63.110 / OH-1004 65.782
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 versionTK1151 / GWHBCHF00000000
Open Full ID Mapping
SNP / Indel variants and carrier samplesCRA009020 · TK1151

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene IDTkA04G505410
LocationChr04:127657739-127658856 (+)
DescriptionSimilar to PFC1: Ribosomal RNA small subunit methyltransferase, chloroplastic
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At2g47420 N6-adenine methyltransferase which modifies the AA dinucleotide at the plant nuclear 18S rRNA nucleotides A1785 and A1786.
Nuclear ribosome biogenesis mediated by the DIM1A rRNA dimethylase is required for organized root growth and epidermal patterning in Arabidopsis.2012 · DOI: 10.1105/tpc.112.101022

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. These OH1004 annotations are retrieved through ID mapping; the Arabidopsis/rice table below uses protein alignments from the query reference.

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.
Open Annotation Module

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.

Nucleus0.839
Rank 1 · TkA04G505410 · TK1151
Cytoplasm0.159
Rank 2 · TkA04G505410 · TK1151
Mitochondrion0.095
Rank 3 · TkA04G505410 · TK1151
Cell membrane0.024
Rank 4 · TkA04G505410 · TK1151
Endoplasmic reticulum0.014
Rank 5 · TkA04G505410 · TK1151

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.

PF00398RrnaAD27-243 aa
PF01135PCMT37-113 aa
PF02006PPS_PS45-86 aa
PF13489Methyltransf_2346-96 aa
PF05185PRMT546-125 aa
PF05219DREV51-95 aa
PF13847Methyltransf_3156-126 aa
PF02390Methyltransf_457-114 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA04G505410PF00398RrnaAD272432.6e-67227.5
TkA04G505410PF01135PCMT371130.02215.3
TkA04G505410PF02006PPS_PS45860.0116.1
TkA04G505410PF13489Methyltransf_2346960.00119.6
TkA04G505410PF05185PRMT5461250.01316.0
TkA04G505410PF05219DREV51950.2511.2
TkA04G505410PF13847Methyltransf_31561260.09813.1
TkA04G505410PF02390Methyltransf_4571140.1812.0
TkA04G505410PF13649Methyltransf_25581266.7e-0937.0
TkA04G505410PF08241Methyltransf_11591251.2e-0629.7
TkA04G505410PF08242Methyltransf_12591261.6e-0629.5
TkA04G505410PF29244Methyltransf_ANTKMT601406.3e-0524.1
TkA04G505410PF17634GP672332820.01416.3
TkA04G505410PF29351Acidic_SOMP2492860.729.6
TkA04G505410PF04931DNA_pol_phi2562906.05.6
TkA04G505410PF26705AFDN2582813.28.8

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

ProteinOrganismDescriptionIdentityDatabaseConfidence
O22268Arabidopsis thalianasp|O22268|DIM1A_ARATH Ribosomal RNA small subunit methyltransferase71.100%Swiss-ProtHigh

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