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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

TkA01G004620
Reference: TK1151 Chr: Chr01 Coordinates: 1218138-1219128 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

729 bp · TkA01G004620|TK1151|cDNA

ATGCTCGCGTCAGAAACAAAGCCTGATAACTTCACGTTTGCTTGCTTACTACGTGCTTGTTCCGAAAGTCTCGATCTTGAAGGTCTAAAAATTGTCCACGCGCAAGTAATTGTTTCTTATTTGGGATTGGACTCCATTACTGCTAGTGCGCTTGTGTCAGCTTACTCTAAATTTCACCTCGTTGATGATGCGAGAATGGTGTTTGATAGACTAAACAAACACGACTTGGTTTTACTAAACACGATGGTTACAGGCTATGG...

CDS

Download CDS FASTA

729 bp · TkA01G004620|TK1151|CDS

ATGCTCGCGTCAGAAACAAAGCCTGATAACTTCACGTTTGCTTGCTTACTACGTGCTTGTTCCGAAAGTCTCGATCTTGAAGGTCTAAAAATTGTCCACGCGCAAGTAATTGTTTCTTATTTGGGATTGGACTCCATTACTGCTAGTGCGCTTGTGTCAGCTTACTCTAAATTTCACCTCGTTGATGATGCGAGAATGGTGTTTGATAGACTAAACAAACACGACTTGGTTTTACTAAACACGATGGTTACAGGCTATGG...

Protein

Download Protein FASTA

242 aa · TkA01G004620|TK1151|PROTEIN

MLASETKPDNFTFACLLRACSESLDLEGLKIVHAQVIVSYLGLDSITASALVSAYSKFHLVDDARMVFDRLNKHDLVLLNTMVTGYGSSGLLEIGQGIHGYCLRTGFDSNTHVSSVLVSIKKPDSILLSILLAVASQLVALTPGIETHGYAIRHNLQTVMVSSALINMYSKCGFLEMALKVFDEMPKSSRNIVSYNSVISSLGLHRLPFYSPFLKRGLNPDESTFTALLSACSHGGLVKQGR

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 IDTkA01G004620
TK1151 IDTkA01G004620
OH-1004 IDLXL04_030729
Relationship / confidenceNon Reciprocal Best Hit / Complex relationship
Protein identity (%)64.400
Protein coverage (%)TK1151 100.000 / OH-1004 35.419
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 IDTkA01G004620
LocationChr01:1218138-1219128 (+)
DescriptionSimilar to PCMP-E65: Putative pentatricopeptide repeat-containing protein At1g64310
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At1g64310 Putative pentatricopeptide repeat-containing protein At1g64310. No verified direct reference in this release
At1g31920 Pentatricopeptide repeat-containing protein At1g31920. 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
At1g11290 Involved in multiple sites RNA editing events in chloroplasts.
Pentatricopeptide repeat proteins with the DYW motif have distinct molecular functions in RNA editing and RNA cleavage in Arabidopsis chloroplasts.2009 · DOI: 10.1105/tpc.108.064667
At3g16610 Pentatricopeptide repeat-containing protein At3g16610. 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_030729 · 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:0006979 response to oxidative stress Biological Process
GO:0009451 RNA modification Biological Process
GO:0009651 response to salt stress Biological Process
GO:0009737 response to abscisic acid Biological Process
GO:0080156 mitochondrial mRNA modification Biological Process
GO:1900864 mitochondrial RNA modification Biological Process
GO:0005739 mitochondrion Cellular Component
GO:0009507 chloroplast Cellular Component
GO:0003723 RNA binding Molecular Function
GO:0008270 zinc ion binding Molecular Function
KEGG gene cross-reference
ath:AT1G64310
ath:AT2G03380
ath:AT3G12770
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.

Mitochondrion0.717
Rank 1 · TkA01G004620 · TK1151
Plastid0.138
Rank 2 · TkA01G004620 · TK1151
Cytoplasm0.037
Rank 3 · TkA01G004620 · TK1151
Nucleus0.033
Rank 4 · TkA01G004620 · TK1151
Peroxisome0.008
Rank 5 · TkA01G004620 · 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.

PF13041PPR_21-21 aa
PF29070MSC6_N5-64 aa
PF13812PPR_36-23 aa
PF12854PPR_17-18 aa
PF01535PPR12-27 aa
PF16955OFeT_139-75 aa
PF13041PPR_244-74 aa
PF13812PPR_344-73 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA01G004620PF13041PPR_21211.5e-1764.1
TkA01G004620PF29070MSC6_N5640.01415.2
TkA01G004620PF13812PPR_36231.9e-0525.4
TkA01G004620PF12854PPR_17182.2e-1350.4
TkA01G004620PF01535PPR12274.5e-1968.0
TkA01G004620PF16955OFeT_139750.08313.3
TkA01G004620PF13041PPR_244741.5e-1764.1
TkA01G004620PF13812PPR_344731.9e-0525.4
TkA01G004620PF12854PPR_145702.2e-1350.4
TkA01G004620PF01535PPR47744.5e-1968.0
TkA01G004620PF13041PPR_275931.5e-1764.1
TkA01G004620PF12854PPR_175932.2e-1350.4
TkA01G004620PF01535PPR79934.5e-1968.0
TkA01G004620PF12854PPR_1981022.2e-1350.4
TkA01G004620PF16955OFeT_11281880.08313.3
TkA01G004620PF01535PPR1631884.5e-1968.0

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
Q9C7V5Arabidopsis thalianasp|Q9C7V5|PP104_ARATH Putative pentatricopeptide repeat-containing protein At1g6431033.400%Swiss-ProtMedium
Q9C6T2Arabidopsis thalianasp|Q9C6T2|PPR68_ARATH Pentatricopeptide repeat-containing protein At1g3192033.200%Swiss-ProtMedium
Q7Y211Arabidopsis thalianasp|Q7Y211|PP285_ARATH Pentatricopeptide repeat-containing protein At3g57430, chloroplastic33.900%Swiss-ProtMedium
Q3E6Q1Arabidopsis thalianasp|Q3E6Q1|PPR32_ARATH Pentatricopeptide repeat-containing protein At1g11290, chloroplastic31.000%Swiss-ProtMedium
Q9LUS3Arabidopsis thalianasp|Q9LUS3|PP237_ARATH Pentatricopeptide repeat-containing protein At3g1661031.800%Swiss-ProtMedium

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