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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

TkA02G400020
Reference: TK1151 Chr: Chr02 Coordinates: 101589752-101592673 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2835 bp · TkA02G400020|TK1151|cDNA

ATGGCCATTTATTCAGCTCCATTCTCCCTCCATTACAACAATCAGTGCCTCCATAGCCCTCTTACAATTCGGATAAACCTTCGATCTTCTCCCCAACATCATCGTCCATTCTCGACCTTCACCAAGTACGTAAGTTCTTCAAAAGCCAAAATTACTAATCAAACCATCTCCAATTATGTTCCAGAAAACGAGTTCACGCTAAAGAATGTTGCCACTGCCCTCCATTCAATGGATTTAACAAACCCAGATCAGTGTGTTCA...

CDS

Download CDS FASTA

2835 bp · TkA02G400020|TK1151|CDS

ATGGCCATTTATTCAGCTCCATTCTCCCTCCATTACAACAATCAGTGCCTCCATAGCCCTCTTACAATTCGGATAAACCTTCGATCTTCTCCCCAACATCATCGTCCATTCTCGACCTTCACCAAGTACGTAAGTTCTTCAAAAGCCAAAATTACTAATCAAACCATCTCCAATTATGTTCCAGAAAACGAGTTCACGCTAAAGAATGTTGCCACTGCCCTCCATTCAATGGATTTAACAAACCCAGATCAGTGTGTTCA...

Protein

Download Protein FASTA

944 aa · TkA02G400020|TK1151|PROTEIN

MAIYSAPFSLHYNNQCLHSPLTIRINLRSSPQHHRPFSTFTKYVSSSKAKITNQTISNYVPENEFTLKNVATALHSMDLTNPDQCVQSYALILRNCRKLHNLQLGSQVHGHMIVSGVELCEFLGSQLLEFYCKVGCIDNARKLFDKMPERNVFSWTSLIGLYSELGDYEETINYQSGKDVYDYMMTIGFEGNNCVKRAFLDMFIKCGRIDIARRLFEQMSSNDVIMWNMMISGYVSKKDFKKALWYVDQMKLKGVMPDRV...

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 IDTkA02G400020
TK1151 IDTkA02G400020
OH-1004 IDLXL04_014744
Relationship / confidenceRbh High Identity Coverage Synteny / Strict
Protein identity (%)95.800
Protein coverage (%)TK1151 100.000 / OH-1004 97.009
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 IDTkA02G400020
LocationChr02:101589752-101592673 (+)
DescriptionSimilar to PCMP-H81: Pentatricopeptide repeat-containing protein At3g57430, chloroplastic
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At3g57430 Involved in RNA editing events 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
At3g63370 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
At3g49170 May play a role in embryogenesis. No verified direct reference in this release
At4g33990 Pentatricopeptide repeat-containing protein At4g33990. No verified direct reference in this release
At4g18750 Plays a major role in single RNA editing events in chloroplasts.
Identification of two pentatricopeptide repeat genes required for RNA editing and zinc binding by C-terminal cytidine deaminase-like domains.2013 · DOI: 10.1074/jbc.m113.485755

Rice

No hit for this species in the current source table.

Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_014744 · 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:0031425 chloroplast RNA processing Biological Process
GO:0009507 chloroplast Cellular Component
GO:0003723 RNA binding Molecular Function
GO:0003729 mRNA binding Molecular Function
GO:0008270 zinc ion binding Molecular Function
KEGG gene cross-reference
ath:AT3G57430
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.

Mitochondrion0.589
Rank 1 · TkA02G400020 · TK1151
Plastid0.255
Rank 2 · TkA02G400020 · TK1151
Nucleus0.052
Rank 3 · TkA02G400020 · TK1151
Cytoplasm0.029
Rank 4 · TkA02G400020 · TK1151
Cell membrane0.006
Rank 5 · TkA02G400020 · 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.

PF02119FlgI18-83 aa
PF29978ATP18_TPR74-109 aa
PF14432DYW_deaminase79-112 aa
PF17177PPR_long86-146 aa
PF23276TPR_2492-153 aa
PF17049AEP1122-162 aa
PF13041PPR_2127-152 aa
PF01535PPR127-152 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA02G400020PF02119FlgI18830.2111.2
TkA02G400020PF29978ATP18_TPR741090.0001722.2
TkA02G400020PF14432DYW_deaminase791122.2e-40137.1
TkA02G400020PF17177PPR_long861467.3e-1762.2
TkA02G400020PF23276TPR_24921534.7e-1453.1
TkA02G400020PF17049AEP11221629.4e-0728.9
TkA02G400020PF13041PPR_21271521.3e-72240.5
TkA02G400020PF01535PPR1271522.8e-70228.5
TkA02G400020PF13812PPR_31271522e-38131.0
TkA02G400020PF12854PPR_11281478.9e-32109.2
TkA02G400020PF14559TPR_191291510.008917.1
TkA02G400020PF13424TPR_121291460.3611.8
TkA02G400020PF07719TPR_21311460.1113.4
TkA02G400020PF13041PPR_21501721.3e-72240.5
TkA02G400020PF13812PPR_31501692e-38131.0
TkA02G400020PF12854PPR_11501608.9e-32109.2

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
Q7Y211Arabidopsis thalianasp|Q7Y211|PP285_ARATH Pentatricopeptide repeat-containing protein At3g57430, chloroplastic31.300%Swiss-ProtMedium
Q9M1V3Arabidopsis thalianasp|Q9M1V3|PP296_ARATH Pentatricopeptide repeat-containing protein At3g63370, chloroplastic28.700%Swiss-ProtLow
Q5G1T1Arabidopsis thalianasp|Q5G1T1|PP272_ARATH Pentatricopeptide repeat-containing protein At3g49170, chloroplastic30.800%Swiss-ProtMedium
O81767Arabidopsis thalianasp|O81767|PP348_ARATH Pentatricopeptide repeat-containing protein At4g3399031.200%Swiss-ProtMedium
Q9SN39Arabidopsis thalianasp|Q9SN39|PP320_ARATH Pentatricopeptide repeat-containing protein DOT4, chloroplastic28.900%Swiss-ProtLow

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