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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

TkA02G094560
Reference: TK1151 Chr: Chr02 Coordinates: 24688406-24690724 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2238 bp · TkA02G094560|TK1151|cDNA

GTTCATACGATCATTCCGTTCAAAGGATGTCTCAGATGATTGGCGTTTGTGTCTGATTAGACCTACGAGATGGTCTTGAACATCTGATATTATTTTGTTGATGTGCGAGTCTGTATTTCAAGAATCATGAAAGCGAGGGTTCGATCCGTCGTCGAGAATGGGAGCCTTCTTTTTCAGCAAAACAGCAAGATAACCCAGTTTAGCAAAACGGGTAGGGTCGAAGAAGCTTGTAAATTATTTAACGAAATGACTCATCGGAA...

CDS

Download CDS FASTA

2112 bp · TkA02G094560|TK1151|CDS

ATGAAAGCGAGGGTTCGATCCGTCGTCGAGAATGGGAGCCTTCTTTTTCAGCAAAACAGCAAGATAACCCAGTTTAGCAAAACGGGTAGGGTCGAAGAAGCTTGTAAATTATTTAACGAAATGACTCATCGGAACACTGTGACATTCAACTCCATGATCTCTGCCTACGCGAAAAATAGAAGGATCAACGATGCGTTAAACCTGTTTGATAAAATGCCTCGGCGCAATCTTGTTTCTTGGAACACGATGATTGCGGGTTG...

Protein

Download Protein FASTA

704 aa · TkA02G094560|TK1151|PROTEIN

MKARVRSVVENGSLLFQQNSKITQFSKTGRVEEACKLFNEMTHRNTVTFNSMISAYAKNRRINDALNLFDKMPRRNLVSWNTMIAGCLHNERVEKARQLFDQMPQRDIFTWTLMITCYTRNGYVNHKKLKEARQLFDEMPVKDLVSWNSMLGGYTQTGEMSLALNFFDQIPVKDVVSWNLIVDGFSQIGDCDSAWRFFKNIPNPNIVSWVTILSALGKNGQIKDARKLFDEMPVKNIVSWNAMIATSVQNSQINEALTLF...

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 IDTkA02G094560
TK1151 IDTkA02G094560
OH-1004 IDLXL04_016896
Relationship / confidenceRbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)95.300
Protein coverage (%)TK1151 39.489 / OH-1004 34.943
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 IDTkA02G094560
LocationChr02:24688406-24690724 (-)
DescriptionSimilar to PCMP-H24: Pentatricopeptide repeat-containing protein At4g02750
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
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
At1g56690 Pentatricopeptide repeat-containing protein At1g56690, mitochondrial. No verified direct reference in this release
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
At2g03880 Pentatricopeptide repeat-containing protein At2g03880, mitochondrial. No verified direct reference in this release
At4g16835 Pentatricopeptide repeat-containing protein At4g16835, mitochondrial. No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_016896 · 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:0009451 RNA modification Biological Process
GO:0010214 seed coat development Biological Process
GO:0048731 system development Biological Process
GO:0140547 acquisition of seed longevity Biological Process
GO:0005739 mitochondrion Cellular Component
GO:0003723 RNA binding Molecular Function
GO:0008270 zinc ion binding Molecular Function
KEGG gene cross-reference
ath:AT1G09410
ath:AT4G02750
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.

Mitochondrion0.645
Rank 1 · TkA02G094560 · TK1151
Plastid0.186
Rank 2 · TkA02G094560 · TK1151
Nucleus0.071
Rank 3 · TkA02G094560 · TK1151
Cytoplasm0.035
Rank 4 · TkA02G094560 · TK1151
Cell membrane0.006
Rank 5 · TkA02G094560 · 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.

PF30397MalM_C19-40 aa
PF13041PPR_220-45 aa
PF24603TPR_3021-101 aa
PF00637Clathrin22-70 aa
PF14689SPOB_a22-42 aa
PF26815Phage_RepB22-79 aa
PF01535PPR23-44 aa
PF29070MSC6_N24-85 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA02G094560PF30397MalM_C19400.0001422.5
TkA02G094560PF13041PPR_220453.8e-120392.6
TkA02G094560PF24603TPR_30211016.1e-0936.9
TkA02G094560PF00637Clathrin22700.0001222.6
TkA02G094560PF14689SPOB_a22420.004117.4
TkA02G094560PF26815Phage_RepB22790.889.9
TkA02G094560PF01535PPR23443.3e-130416.3
TkA02G094560PF29070MSC6_N24857.5e-1658.9
TkA02G094560PF12854PPR_127427e-92301.5
TkA02G094560PF13428TPR_1427424e-1349.3
TkA02G094560PF14559TPR_1927434.3e-1246.9
TkA02G094560PF07719TPR_227409.6e-0522.9
TkA02G094560PF20946Ctf4_C27670.04614.6
TkA02G094560PF20431E_motif30735.3e-1659.3
TkA02G094560PF22330Rib_mS39_PPR30581.3e-0835.5
TkA02G094560PF17177PPR_long31722.5e-0627.7

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
Q9SN39Arabidopsis thalianasp|Q9SN39|PP320_ARATH Pentatricopeptide repeat-containing protein DOT4, chloroplastic43.000%Swiss-ProtLow
Q9FXB9Arabidopsis thalianasp|Q9FXB9|PPR84_ARATH Pentatricopeptide repeat-containing protein At1g56690, mitochondrial40.000%Swiss-ProtLow
Q7Y211Arabidopsis thalianasp|Q7Y211|PP285_ARATH Pentatricopeptide repeat-containing protein At3g57430, chloroplastic38.200%Swiss-ProtLow
Q9SI53Arabidopsis thalianasp|Q9SI53|PP147_ARATH Pentatricopeptide repeat-containing protein At2g03880, mitochondrial38.700%Swiss-ProtLow
Q9M4P3Arabidopsis thalianasp|Q9M4P3|PP316_ARATH Pentatricopeptide repeat-containing protein At4g16835, mitochondrial41.300%Swiss-ProtLow

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