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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

TkA02G239090
Reference: TK1151 Chr: Chr02 Coordinates: 61543253-61543744 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

492 bp · TkA02G239090|TK1151|cDNA

ATGCAAACTTTTTACAAAGTGACACCGCAGTCCGAGCACTATGCATGTTTGATTGATATATTGGGTAGATCTGGCGAAGTTGAAAAAGCTTATAAAATGATCCAAGAGATGCCATTTGAACCCGATGCTGGAGTTTGGGGTGCCATTCTTGCCGGTTGTCGTTTTACTTTGAATACTGAATTAGCGGAAATAGCTTTTGAGAAAATTACGAGTTTGGACCCTAAAAACTCCGGGGCATACGTTATGTTGTCAAATATATA...

CDS

Download CDS FASTA

492 bp · TkA02G239090|TK1151|CDS

ATGCAAACTTTTTACAAAGTGACACCGCAGTCCGAGCACTATGCATGTTTGATTGATATATTGGGTAGATCTGGCGAAGTTGAAAAAGCTTATAAAATGATCCAAGAGATGCCATTTGAACCCGATGCTGGAGTTTGGGGTGCCATTCTTGCCGGTTGTCGTTTTACTTTGAATACTGAATTAGCGGAAATAGCTTTTGAGAAAATTACGAGTTTGGACCCTAAAAACTCCGGGGCATACGTTATGTTGTCAAATATATA...

Protein

Download Protein FASTA

163 aa · TkA02G239090|TK1151|PROTEIN

MQTFYKVTPQSEHYACLIDILGRSGEVEKAYKMIQEMPFEPDAGVWGAILAGCRFTLNTELAEIAFEKITSLDPKNSGAYVMLSNIYASLGLWRKVTQVRGGLMKENEVKKQTAFSWMEIGDTVHYFVGGDLSHLAINEIRFLVLQLCSQMKATDDTHYSLLD

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 IDTkA02G239090
TK1151 IDTkA02G239090
OH-1004 IDLXL04_024214
Relationship / confidenceMulti Source To Oh1004 / Complex relationship
Protein identity (%)43.600
Protein coverage (%)TK1151 95.706 / OH-1004 18.150
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 IDTkA02G239090
LocationChr02:61543253-61543744 (+)
DescriptionSimilar to PCMP-E90: Pentatricopeptide repeat-containing protein At3g02330, mitochondrial
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At4g02750 Pentatricopeptide repeat-containing protein At4g02750. No verified direct reference in this release
At3g14330 Pentatricopeptide repeat-containing protein At3g14330. No verified direct reference in this release
At2g29760 Involved in RNA editing event in chloroplasts.
A study of new Arabidopsis chloroplast RNA editing mutants reveals general features of editing factors and their target sites.2009 · DOI: 10.1105/tpc.109.071472
At4g01030 Pentatricopeptide repeat-containing protein At4g01030, mitochondrial. No verified direct reference in this release
At1g15510 Regulates the RNA editing of the chloroplast transcript accD, and is essential for the early stages of chloroplast biogenesis.
AtECB2, a pentatricopeptide repeat protein, is required for chloroplast transcript accD RNA editing and early chloroplast biogenesis in Arabidopsis thaliana.2009 · DOI: 10.1111/j.1365-313x.2009.03930.x
Editing of accD and ndhF chloroplast transcripts is partially affected in the Arabidopsis vanilla cream1 mutant.2010 · DOI: 10.1007/s11103-010-9616-5
A point mutation in the pentatricopeptide repeat motif of the AtECB2 protein causes delayed chloroplast development.2011 · DOI: 10.1111/j.1744-7909.2011.01030.x

Rice

No hit for this species in the current source table.

Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_024214 · 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:0006397 mRNA processing Biological Process
GO:0009451 RNA modification Biological Process
GO:0016554 cytidine to uridine editing Biological Process
GO:0080156 mitochondrial mRNA modification Biological Process
GO:0005739 mitochondrion Cellular Component
GO:0003723 RNA binding Molecular Function
GO:0060090 molecular adaptor activity Molecular Function
KEGG gene cross-reference
ath:AT3G02330
ath:AT3G09040
ath:AT4G39530
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.

Mitochondrion0.520
Rank 1 · TkA02G239090 · TK1151
Plastid0.286
Rank 2 · TkA02G239090 · TK1151
Nucleus0.078
Rank 3 · TkA02G239090 · TK1151
Cytoplasm0.060
Rank 4 · TkA02G239090 · TK1151
Peroxisome0.012
Rank 5 · TkA02G239090 · 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.

PF12854PPR_113-37 aa
PF13041PPR_213-38 aa
PF01535PPR14-37 aa
PF13431TPR_1715-26 aa
PF14559TPR_1919-39 aa
PF13181TPR_820-33 aa
PF01535PPR46-68 aa
PF20431E_motif58-119 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA02G239090PF12854PPR_113370.0005420.3
TkA02G239090PF13041PPR_213380.002618.6
TkA02G239090PF01535PPR14372.8e-0524.8
TkA02G239090PF13431TPR_1715260.001919.0
TkA02G239090PF14559TPR_1919390.1213.5
TkA02G239090PF13181TPR_820330.02215.6
TkA02G239090PF01535PPR46682.8e-0524.8
TkA02G239090PF20431E_motif581195.6e-1762.5
TkA02G239090PF13181TPR_858760.02215.6
TkA02G239090PF13431TPR_1765910.001919.0
TkA02G239090PF14559TPR_1965930.1213.5
TkA02G239090PF13181TPR_879910.02215.6
TkA02G239090PF01535PPR80992.8e-0524.8
TkA02G239090PF13041PPR_21021100.002618.6
TkA02G239090PF20431E_motif1501625.6e-1762.5

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
Q9SY02Arabidopsis thalianasp|Q9SY02|PP301_ARATH Pentatricopeptide repeat-containing protein At4g0275046.600%Swiss-ProtMedium
Q9LUL5Arabidopsis thalianasp|Q9LUL5|PP229_ARATH Pentatricopeptide repeat-containing protein At3g1433045.400%Swiss-ProtMedium
O82380Arabidopsis thalianasp|O82380|PP175_ARATH Pentatricopeptide repeat-containing protein At2g29760, chloroplastic44.800%Swiss-ProtMedium
Q9SV26Arabidopsis thalianasp|Q9SV26|PP297_ARATH Pentatricopeptide repeat-containing protein At4g01030, mitochondrial40.100%Swiss-ProtMedium
Q9M9E2Arabidopsis thalianasp|Q9M9E2|PPR45_ARATH Pentatricopeptide repeat-containing protein At1g15510, chloroplastic44.900%Swiss-ProtMedium

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