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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

TkA03G471860
Reference: TK1151 Chr: Chr03 Coordinates: 117921887-117923950 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2064 bp · TkA03G471860|TK1151|cDNA

ATGGAAGGCCTCTGCAACCTCTTCTTACCTTCTTCTACAACCGTTCATCTCCACCCATTCCCGCCGAACCTTCTAAGCAACCAGAATCACCCCGGTTTCAAAATAAAATCTTCAACAGTCTCTCCTCAATCTGCATATCAAACGCCCACTAGAAAAAAGTACCAAAAGCAGCGAGATTTCGAAGAAAAAGACGCATTCCCATCATCGATACCAATCCACACCAAGAACCCTAATGCCATTTACAAAGATATTCAAAGATT...

CDS

Download CDS FASTA

2064 bp · TkA03G471860|TK1151|CDS

ATGGAAGGCCTCTGCAACCTCTTCTTACCTTCTTCTACAACCGTTCATCTCCACCCATTCCCGCCGAACCTTCTAAGCAACCAGAATCACCCCGGTTTCAAAATAAAATCTTCAACAGTCTCTCCTCAATCTGCATATCAAACGCCCACTAGAAAAAAGTACCAAAAGCAGCGAGATTTCGAAGAAAAAGACGCATTCCCATCATCGATACCAATCCACACCAAGAACCCTAATGCCATTTACAAAGATATTCAAAGATT...

Protein

Download Protein FASTA

687 aa · TkA03G471860|TK1151|PROTEIN

MEGLCNLFLPSSTTVHLHPFPPNLLSNQNHPGFKIKSSTVSPQSAYQTPTRKKYQKQRDFEEKDAFPSSIPIHTKNPNAIYKDIQRFAKQNKLKEALTILDYLDKRGVPVNPTTFSELIAAVVRVKSLSIGKVIHTHIRINGLENNEFLRTKLVNMYTSCGSVENAHHLFDEMPTSSVYPWNALLRGNIIMGGKNHQKILETFSRMRELGIELNVYTFSCLLKSLGGSSALNQGLKTHGLLIKNGLIDDSIVSTCLIDMY...

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 IDTkA03G471860
TK1151 IDTkA03G471860
OH-1004 IDLXL04_009786
Relationship / confidenceRbh High Identity Coverage Synteny / Strict
Protein identity (%)99.000
Protein coverage (%)TK1151 98.836 / OH-1004 97.139
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 IDTkA03G471860
LocationChr03:117921887-117923950 (+)
DescriptionSimilar to PCMP-A3: Pentatricopeptide repeat-containing protein At1g71460, chloroplastic
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At1g71460 Pentatricopeptide repeat-containing protein At1g71460, chloroplastic. No verified direct reference in this release
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
At4g32430 Pentatricopeptide repeat-containing protein At4g32430, mitochondrial. No verified direct reference in this release
At2g33680 Pentatricopeptide repeat-containing protein At2g33680. No verified direct reference in this release
At3g47840 Putative pentatricopeptide repeat-containing protein At3g47840. 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_009786 · 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:0010087 phloem or xylem histogenesis Biological Process
GO:0010305 leaf vascular tissue pattern formation Biological Process
GO:0010588 cotyledon vascular tissue pattern formation Biological Process
GO:0016556 mRNA modification Biological Process
GO:0048366 leaf development Biological Process
GO:1900865 chloroplast RNA modification Biological Process
GO:0009507 chloroplast Cellular Component
GO:0003723 RNA binding Molecular Function
GO:0003729 mRNA binding Molecular Function
GO:0004519 endonuclease activity Molecular Function
KEGG gene cross-reference
ath:AT1G11290
ath:AT1G71460
ath:AT4G18750
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.

Mitochondrion0.609
Rank 1 · TkA03G471860 · TK1151
Plastid0.284
Rank 2 · TkA03G471860 · TK1151
Nucleus0.036
Rank 3 · TkA03G471860 · TK1151
Cytoplasm0.024
Rank 4 · TkA03G471860 · TK1151
Cell membrane0.007
Rank 5 · TkA03G471860 · 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.

PF17177PPR_long76-180 aa
PF13041PPR_284-121 aa
PF01535PPR84-108 aa
PF23276TPR_2484-124 aa
PF24760TPR_IF140_C84-101 aa
PF12854PPR_185-101 aa
PF13812PPR_387-122 aa
PF29070MSC6_N87-124 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA03G471860PF17177PPR_long761801.8e-1144.5
TkA03G471860PF13041PPR_2841212.4e-64214.0
TkA03G471860PF01535PPR841081.5e-41138.5
TkA03G471860PF23276TPR_24841244e-1969.5
TkA03G471860PF24760TPR_IF140_C841010.6511.1
TkA03G471860PF12854PPR_1851019.4e-2380.4
TkA03G471860PF13812PPR_3871222.5e-2898.6
TkA03G471860PF29070MSC6_N871244.4e-2072.9
TkA03G471860PF12921ATP13871030.02215.4
TkA03G471860PF07719TPR_288973.48.7
TkA03G471860PF14559TPR_19891010.0614.4
TkA03G471860PF13812PPR_3991342.5e-2898.6
TkA03G471860PF23276TPR_241381804e-1969.5
TkA03G471860PF13812PPR_31411762.5e-2898.6
TkA03G471860PF29070MSC6_N1512284.4e-2072.9
TkA03G471860PF13041PPR_21521802.4e-64214.0

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
Q9C9I3Arabidopsis thalianasp|Q9C9I3|PP115_ARATH Pentatricopeptide repeat-containing protein At1g71460, chloroplastic57.100%Swiss-ProtHigh
Q9M1V3Arabidopsis thalianasp|Q9M1V3|PP296_ARATH Pentatricopeptide repeat-containing protein At3g63370, chloroplastic29.600%Swiss-ProtLow
Q84MA3Arabidopsis thalianasp|Q84MA3|PP345_ARATH Pentatricopeptide repeat-containing protein At4g32430, mitochondrial28.200%Swiss-ProtLow
P93005Arabidopsis thalianasp|P93005|PP181_ARATH Pentatricopeptide repeat-containing protein At2g3368026.900%Swiss-ProtLow
Q9STS9Arabidopsis thalianasp|Q9STS9|PP268_ARATH Putative pentatricopeptide repeat-containing protein At3g4784026.400%Swiss-ProtLow

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