RubberDandelionOmics Rubber Dandelion Multi-omics Website
More
Transcriptome Expression Annotation Rubber Pathway TF Prediction Targets Protein Network Resequencing Tools Downloads
ZH EN

How to use this page

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

TkA01G131880
Reference: TK1151 Chr: Chr01 Coordinates: 33375431-33388635 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2117 bp · TkA01G131880|TK1151|cDNA

GTTTCTGGTGGGACTTATTATTTCCATTTTCCACCCAAGGGGTGTATGAACAAGCATGCATCCCTCGAAATATCTCCCCCTCTCTAGCTTCAATCCCCTTTCTATCTACTCACAAACCCTTCCAAATTTATCATTCAGAATCGAATCTAAAATCTCGAATACCAAAAATAGGATTTCGTGTTCGTCGATTCTTCCCTATAATTCGGTGTTTATAGCCTTTAATCGTAAATTTTAGGGTTTTCGCTGTGAATACAGCTGTA...

CDS

Download CDS FASTA

2532 bp · TkA01G131880|TK1151|CDS

ATGGCAAACGGAACAGACGGTGAAGAATACGTGTTATTATCCTCGATTCGTCCTGGCTTGAAACGCGAATTTGCATTCGCTATGAAATCTCAGTCGGAAAATTATGGATTCTGTGGTCGGACGCGCGCCCGTAGGGCACAGATGTCGCCGGAGCCTTCACCGATCAATAAGAAATCAAAAACTGCCGATCTAGGTAATGGAAAAGAGGAGAAAAACGAGGTTTGTTCGGAGAAATTAGTGGCTGAATCAATTTCGAATAC...

Protein

Download Protein FASTA

843 aa · TkA01G131880|TK1151|PROTEIN

MANGTDGEEYVLLSSIRPGLKREFAFAMKSQSENYGFCGRTRARRAQMSPEPSPINKKSKTADLGNGKEEKNEVCSEKLVAESISNTDEEESKSDVVDPGRAVIEPMNEVKSEPMDDSVKSTRISSDLTPAKLDDNEDEKIAEKDGNVISSIVTPSNGNNDKKLEIKMSKKIVLKRFPTKLKELLETGLLEGLPVRYVRGAKVRGNSEKGLPGVINGAGILCFCEACGGKEVVTPNQFELHAGSANKRPPEYIYLGNGNT...

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.

Download Gene (CDS) Download Protein

ID Mapping

Input IDTkA01G131880
TK1151 IDTkA01G131880
OH-1004 IDLXL04_004592
Relationship / confidenceSequence Supported Annotation Or Model Conflict / Review
Protein identity (%)99.900
Protein coverage (%)TK1151 99.881 / OH-1004 58.000
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 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 IDTkA01G131880
LocationChr01:33375431-33388635 (+)
DescriptionSimilar to At1g12700: Putative pentatricopeptide repeat-containing protein At1g12700, mitochondrial
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At3g14980 Histone H3 acetyltransferase that binds methylated DNA at chromatin sites lacking histone H3K4 di- or trimethylation and catalyzes H3K18 and H3K23 acetylation.
A histone acetyltransferase regulates active DNA demethylation in Arabidopsis.2012 · DOI: 10.1126/science.1219416
Antisilencing role of the RNA-directed DNA methylation pathway and a histone acetyltransferase in Arabidopsis.2012 · DOI: 10.1073/pnas.1208557109
Regulation of active DNA demethylation by an α-crystallin domain protein in Arabidopsis.2014 · DOI: 10.1016/j.molcel.2014.06.008

Rice

No hit for this species in the current source table.

Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_004592 · 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:0006396 RNA processing Biological Process
GO:0006397 mRNA processing Biological Process
GO:0080156 mitochondrial mRNA modification Biological Process
GO:0005739 mitochondrion Cellular Component
GO:0009507 chloroplast Cellular Component
KEGG gene cross-reference
ath:AT1G12700
ath:AT1G62930
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.

Nucleus0.920
Rank 1 · TkA01G131880 · TK1151
Cytoplasm0.121
Rank 2 · TkA01G131880 · TK1151
Cell membrane0.039
Rank 3 · TkA01G131880 · TK1151
Endoplasmic reticulum0.023
Rank 4 · TkA01G131880 · TK1151
Plastid0.017
Rank 5 · TkA01G131880 · 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.

PF16135TDBD213-268 aa
PF00628PHD223-227 aa
PF23011PHD-1st_NSD294-300 aa
PF00628PHD295-318 aa
PF16135TDBD411-456 aa
PF13771zf-HC5HC2H416-423 aa
PF13771zf-HC5HC2H457-502 aa
PF13832zf-HC5HC2H_2461-502 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA01G131880PF16135TDBD2132681.5e-2796.1
TkA01G131880PF00628PHD2232272.9e-0731.1
TkA01G131880PF23011PHD-1st_NSD2943000.0001822.3
TkA01G131880PF00628PHD2953182.9e-0731.1
TkA01G131880PF16135TDBD4114561.5e-2796.1
TkA01G131880PF13771zf-HC5HC2H4164230.004218.0
TkA01G131880PF13771zf-HC5HC2H4575020.004218.0
TkA01G131880PF13832zf-HC5HC2H_24615020.009616.8
TkA01G131880PF23011PHD-1st_NSD4725140.0001822.3
TkA01G131880PF00628PHD4755132.9e-0731.1
TkA01G131880PF16135TDBD5105231.5e-2796.1
TkA01G131880PF13832zf-HC5HC2H_25656090.009616.8
TkA01G131880PF13771zf-HC5HC2H5686120.004218.0
TkA01G131880PF00628PHD5716222.9e-0731.1
TkA01G131880PF16135TDBD5886001.5e-2796.1
TkA01G131880PF23011PHD-1st_NSD5906260.0001822.3

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

ProteinOrganismDescriptionIdentityDatabaseConfidence
F4IXE7Arabidopsis thalianasp|F4IXE7|IDM1_ARATH Increased DNA methylation 127.900%Swiss-ProtLow

JBrowse

View in Genome Browser