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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

TkA06G398870
Reference: TK1151 Chr: Chr06 Coordinates: 98829559-98832242 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1879 bp · TkA06G398870|TK1151|cDNA

CCACACCCTATCCCCTGCCTCCTAATAGTCAAGAAGACACTCCTTCCCTCACCGCTCGATTTCTCCTTCCATCTCCCCCCGTTCGCTATCCCACGACCGTTGCGTGCCCGGACCTTCCGCCATTGCCACCAACGTTAACAAGTCACCGGCCACCACCCTTAAAAGACTTCGGATATCGCCAATCTCCGCCTCCGGAGCTGTTTATTGTCGACACAAAGTTTGAACTGTTCTTCATATAGTTATGGTTCTTGCAACCATAC...

CDS

Download CDS FASTA

1512 bp · TkA06G398870|TK1151|CDS

ATGGTTCTTGCAACCATACCTTCTCCGACCGTCCCCACCACCACCACCGCCGCCCCCGCCAGTGTGAGCTACAATGAATACATCAAAACAACCAACCACCACCGTCGTCTCCTCCACTTACTTAACCAATGCACCTCCATGTCTCACCTCAAACAAATCCACGCCCAAACACTCCGAACCACCTCCACCACCAATCCCCACACGCTCTTCCTCCACAGTCGAATCCTCCATTTCTCATCTCTCCACGACCTCCACTACGC...

Protein

Download Protein FASTA

503 aa · TkA06G398870|TK1151|PROTEIN

MVLATIPSPTVPTTTTAAPASVSYNEYIKTTNHHRRLLHLLNQCTSMSHLKQIHAQTLRTTSTTNPHTLFLHSRILHFSSLHDLHYASLFFQTHIQNANSFAWNTIIKACSKSTNNKQDAIFLYLKMISEWNVNVTPDKHTFPFVLKACAYLFAVSEGTQLHAHIIKLGLSSDVYINNSLIHFYGSCGRLKDAQDVFDEMPERTVVSWNVMIDTLVRLNEFDNAITCFRNMQTSFKPDSFTIQSILHACSGLGALSLGIW...

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 IDTkA06G398870
TK1151 IDTkA06G398870
OH-1004 IDLXL04_023119
Relationship / confidenceRbh Sequence Supported / Probable
Protein identity (%)91.900
Protein coverage (%)TK1151 100.000 / OH-1004 100.000
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 IDTkA06G398870
LocationChr06:98829559-98832242 (-)
DescriptionSimilar to PCMP-H51: Pentatricopeptide repeat-containing protein At1g59720, chloroplastic/mitochondrial
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At1g59720 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
At4g21065 Pentatricopeptide repeat-containing protein At4g21065. No verified direct reference in this release
At1g08070 Involved in multiple sites RNA editing events in chloroplasts. No verified direct reference in this release
At2g02980 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
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_023119 · 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:0031425 chloroplast RNA processing Biological Process
GO:0005739 mitochondrion Cellular Component
GO:0009507 chloroplast Cellular Component
GO:0003723 RNA binding Molecular Function
GO:0004519 endonuclease activity Molecular Function
GO:0008270 zinc ion binding Molecular Function
KEGG gene cross-reference
ath:AT1G59720
ath:AT2G02980
ath:AT2G36730
ath:AT2G42920
ath:AT4G21065
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.

Mitochondrion0.605
Rank 1 · TkA06G398870 · TK1151
Plastid0.220
Rank 2 · TkA06G398870 · TK1151
Nucleus0.055
Rank 3 · TkA06G398870 · TK1151
Cytoplasm0.034
Rank 4 · TkA06G398870 · TK1151
Cell membrane0.005
Rank 5 · TkA06G398870 · 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.

PF17869Cys_box16-57 aa
PF13041PPR_219-28 aa
PF17869Cys_box80-119 aa
PF29070MSC6_N82-219 aa
PF13041PPR_299-150 aa
PF12854PPR_199-109 aa
PF23276TPR_2499-125 aa
PF01535PPR102-113 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA06G398870PF17869Cys_box16570.02515.3
TkA06G398870PF13041PPR_219285.5e-43145.6
TkA06G398870PF17869Cys_box801190.02515.3
TkA06G398870PF29070MSC6_N822195.6e-1142.9
TkA06G398870PF13041PPR_2991505.5e-43145.6
TkA06G398870PF12854PPR_1991095.2e-2587.6
TkA06G398870PF23276TPR_24991252.1e-0834.8
TkA06G398870PF01535PPR1021133e-38128.1
TkA06G398870PF13812PPR_31021493.4e-1659.8
TkA06G398870PF17177PPR_long1052311.8e-0834.7
TkA06G398870PF07719TPR_21141270.03914.8
TkA06G398870PF13812PPR_31682143.4e-1659.8
TkA06G398870PF12854PPR_11692005.2e-2587.6
TkA06G398870PF13041PPR_21732035.5e-43145.6
TkA06G398870PF23276TPR_241732022.1e-0834.8
TkA06G398870PF01535PPR1782033e-38128.1

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
Q0WQW5Arabidopsis thalianasp|Q0WQW5|PPR85_ARATH Pentatricopeptide repeat-containing protein At1g59720, chloroplastic/mitochondrial48.900%Swiss-ProtMedium
A8MQA3Arabidopsis thalianasp|A8MQA3|PP330_ARATH Pentatricopeptide repeat-containing protein At4g2106540.400%Swiss-ProtMedium
Q9LN01Arabidopsis thalianasp|Q9LN01|PPR21_ARATH Pentatricopeptide repeat-containing protein At1g08070, chloroplastic35.000%Swiss-ProtMedium
Q8LK93Arabidopsis thalianasp|Q8LK93|PP145_ARATH Pentatricopeptide repeat-containing protein At2g02980, chloroplastic29.800%Swiss-ProtLow
Q9SI53Arabidopsis thalianasp|Q9SI53|PP147_ARATH Pentatricopeptide repeat-containing protein At2g03880, mitochondrial33.600%Swiss-ProtMedium

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