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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

TkA06G456840
Reference: TK1151 Chr: Chr06 Coordinates: 112907577-112910047 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1080 bp · TkA06G456840|TK1151|cDNA

ATGACGGTTGTCACACGAGGTGAAGAAGAAAGATGGCACCGACGGGTAAATGGAGCTCGGGCTCAGCGTGAGGACGACACCGTAGGAGTTTGGGTTCAGAAAGATGAGCGGCTTCACGGGTTAACAAAGGCCGACACCGCTCACCCTTATCTCGAACTAAAAGCTTGTTCACGGATGGCGTTGATTAGAGAAGGAATGCAGGTTCATGGTTTTTTAGTAAAGATTGGACTTACAAGTGATGTATATTTACAGAATTGTTT...

CDS

Download CDS FASTA

1080 bp · TkA06G456840|TK1151|CDS

ATGACGGTTGTCACACGAGGTGAAGAAGAAAGATGGCACCGACGGGTAAATGGAGCTCGGGCTCAGCGTGAGGACGACACCGTAGGAGTTTGGGTTCAGAAAGATGAGCGGCTTCACGGGTTAACAAAGGCCGACACCGCTCACCCTTATCTCGAACTAAAAGCTTGTTCACGGATGGCGTTGATTAGAGAAGGAATGCAGGTTCATGGTTTTTTAGTAAAGATTGGACTTACAAGTGATGTATATTTACAGAATTGTTT...

Protein

Download Protein FASTA

359 aa · TkA06G456840|TK1151|PROTEIN

MTVVTRGEEERWHRRVNGARAQREDDTVGVWVQKDERLHGLTKADTAHPYLELKACSRMALIREGMQVHGFLVKIGLTSDVYLQNCLISMYVRAGCVEFARQLFDRMPERDSISFNSMIDGYVKCGMITSARELFDSFPSQMKNLRSWNCMISGYVVVDDGFTLAWELFNEMPDRDLVSWNLMIRCCIKNGKIDLARTLFDRMPEKDVISWAKLIDGYAKSGNINTARHLFDEMPQRDIISCNIIMAGYIQNGDMGKKEI...

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 IDTkA06G456840
TK1151 IDTkA06G456840
OH-1004 IDLXL04_022737
Relationship / confidenceRbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)60.900
Protein coverage (%)TK1151 53.482 / OH-1004 68.649
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 IDTkA06G456840
LocationChr06:112907577-112910047 (-)
DescriptionSimilar to CRR4: Pentatricopeptide repeat-containing protein At2g45350, chloroplastic
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At2g45350 Plays a major role in chloroplast RNA editing.
A pentatricopeptide repeat protein is a site recognition factor in chloroplast RNA editing.2006 · DOI: 10.1074/jbc.m608184200
Two interacting proteins are necessary for the editing of the NdhD-1 site in Arabidopsis plastids.2012 · DOI: 10.1105/tpc.112.099507
At3g49142 Putative pentatricopeptide repeat-containing protein At3g49142. No verified direct reference in this release
At4g21300 Pentatricopeptide repeat-containing protein At4g21300. No verified direct reference in this release
At3g14730 Pentatricopeptide repeat-containing protein At3g14730. No verified direct reference in this release
At2g03880 Pentatricopeptide repeat-containing protein At2g03880, 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_022737 · 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:0016556 mRNA modification Biological Process
GO:0099402 plant organ development Biological Process
GO:1900865 chloroplast RNA modification Biological Process
GO:0005739 mitochondrion Cellular Component
GO:0005773 vacuole Cellular Component
GO:0009507 chloroplast Cellular Component
GO:0003723 RNA binding Molecular Function
KEGG gene cross-reference
ath:AT2G35030
ath:AT2G45350
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.

Mitochondrion0.604
Rank 1 · TkA06G456840 · TK1151
Plastid0.159
Rank 2 · TkA06G456840 · TK1151
Nucleus0.091
Rank 3 · TkA06G456840 · TK1151
Cytoplasm0.069
Rank 4 · TkA06G456840 · TK1151
Peroxisome0.016
Rank 5 · TkA06G456840 · 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.

PF23276TPR_2453-110 aa
PF01535PPR54-76 aa
PF13812PPR_375-110 aa
PF12854PPR_176-107 aa
PF13041PPR_280-110 aa
PF17049AEP184-124 aa
PF01535PPR85-110 aa
PF14559TPR_1991-111 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA06G456840PF23276TPR_24531100.009216.6
TkA06G456840PF01535PPR54766e-39130.3
TkA06G456840PF13812PPR_3751107.2e-0833.1
TkA06G456840PF12854PPR_1761071.1e-2383.3
TkA06G456840PF13041PPR_2801104.6e-34117.0
TkA06G456840PF17049AEP1841240.02114.6
TkA06G456840PF01535PPR851106e-39130.3
TkA06G456840PF14559TPR_19911110.0005720.9
TkA06G456840PF30087DUF8606911470.1912.9
TkA06G456840PF22330Rib_mS39_PPR981240.004717.4
TkA06G456840PF29070MSC6_N1091350.3810.5
TkA06G456840PF12854PPR_11101361.1e-2383.3
TkA06G456840PF13041PPR_21111364.6e-34117.0
TkA06G456840PF23276TPR_241122010.009216.6
TkA06G456840PF22339YgxA-like_sub_bind1121620.3112.2
TkA06G456840PF01535PPR1131376e-39130.3

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
O22137Arabidopsis thalianasp|O22137|PP202_ARATH Pentatricopeptide repeat-containing protein At2g45350, chloroplastic57.800%Swiss-ProtLow
P0C899Arabidopsis thalianasp|P0C899|PP271_ARATH Putative pentatricopeptide repeat-containing protein At3g4914224.200%Swiss-ProtLow
Q9STE1Arabidopsis thalianasp|Q9STE1|PP333_ARATH Pentatricopeptide repeat-containing protein At4g2130023.800%Swiss-ProtLow
Q9LUC2Arabidopsis thalianasp|Q9LUC2|PP231_ARATH Pentatricopeptide repeat-containing protein At3g1473023.100%Swiss-ProtLow
Q9SI53Arabidopsis thalianasp|Q9SI53|PP147_ARATH Pentatricopeptide repeat-containing protein At2g03880, mitochondrial45.100%Swiss-ProtLow

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