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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

TkA02G019830
Reference: TK1151 Chr: Chr02 Coordinates: 4638731-4640774 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1932 bp · TkA02G019830|TK1151|cDNA

ATGCTCCAAGTCGTAGCTTCTGGTTCTCTTCAGTCATCTTCAAACCCGTATCCTTTCCAAATCTGCAGAAACCCAATTGAACCTGCTCAGTTACACGCCGTATCACTCAAAACAGCAACCTTTCATGACCCTTTGATCTCTTCTCGCCTTATATCCCTCTATGTTCACTCTCTAAGCAACAGTCTTGATCATGTCAGATCTGTGTTTAACCAAATTAACAAACCAACATTGCATTCTTGGAACACCCTCATCAAATCCTA...

CDS

Download CDS FASTA

1932 bp · TkA02G019830|TK1151|CDS

ATGCTCCAAGTCGTAGCTTCTGGTTCTCTTCAGTCATCTTCAAACCCGTATCCTTTCCAAATCTGCAGAAACCCAATTGAACCTGCTCAGTTACACGCCGTATCACTCAAAACAGCAACCTTTCATGACCCTTTGATCTCTTCTCGCCTTATATCCCTCTATGTTCACTCTCTAAGCAACAGTCTTGATCATGTCAGATCTGTGTTTAACCAAATTAACAAACCAACATTGCATTCTTGGAACACCCTCATCAAATCCTA...

Protein

Download Protein FASTA

643 aa · TkA02G019830|TK1151|PROTEIN

MLQVVASGSLQSSSNPYPFQICRNPIEPAQLHAVSLKTATFHDPLISSRLISLYVHSLSNSLDHVRSVFNQINKPTLHSWNTLIKSYVENQRSQESLLAFLEFMSRSSLMPDVFTLPCVIKACGRLMATKEGEQIHGLILKIGFGTDVFIQSSLSGNVELAKDLFDEMAERDVVSWTGMVDGLSKHGKVDDARKVFDEMPSRTLPSWNAMINGYMKAGDFLSAHILFDQMEEKDIITWNSMISGYECNGRFSEALKLFTQ...

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 IDTkA02G019830
TK1151 IDTkA02G019830
OH-1004 IDLXL04_017641
Relationship / confidenceRbh Sequence Supported / Probable
Protein identity (%)90.400
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 IDTkA02G019830
LocationChr02:4638731-4640774 (+)
DescriptionSimilar to PCMP-H33: Pentatricopeptide repeat-containing protein At2g29760, chloroplastic
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
At5g66520 Pentatricopeptide repeat-containing protein At5g66520. No verified direct reference in this release
At5g48910 Pentatricopeptide repeat-containing protein At5g48910. 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

Rice

No hit for this species in the current source table.

Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_017641 · 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:0016554 cytidine to uridine editing Biological Process
GO:0031425 chloroplast RNA processing Biological Process
GO:0080156 mitochondrial mRNA modification Biological Process
GO:1900865 chloroplast RNA modification Biological Process
GO:0005739 mitochondrion Cellular Component
GO:0009507 chloroplast Cellular Component
GO:0003723 RNA binding Molecular Function
GO:0003729 mRNA binding Molecular Function
GO:0008270 zinc ion binding Molecular Function
KEGG gene cross-reference
ath:AT1G08070
ath:AT2G29760
ath:AT3G12770
ath:AT5G48910
ath:AT5G66520
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.

Mitochondrion0.630
Rank 1 · TkA02G019830 · TK1151
Plastid0.197
Rank 2 · TkA02G019830 · TK1151
Nucleus0.054
Rank 3 · TkA02G019830 · TK1151
Cytoplasm0.038
Rank 4 · TkA02G019830 · TK1151
Cell membrane0.006
Rank 5 · TkA02G019830 · 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.

PF06239ECSIT_N56-124 aa
PF29070MSC6_N60-122 aa
PF22330Rib_mS39_PPR64-87 aa
PF12854PPR_174-87 aa
PF13041PPR_275-124 aa
PF23240HAT_PRP39_N76-105 aa
PF05843Suf76-103 aa
PF13812PPR_377-124 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA02G019830PF06239ECSIT_N561240.1711.9
TkA02G019830PF29070MSC6_N601225e-1349.6
TkA02G019830PF22330Rib_mS39_PPR64874.2e-0524.1
TkA02G019830PF12854PPR_174873.7e-42142.5
TkA02G019830PF13041PPR_2751241.2e-51173.3
TkA02G019830PF23240HAT_PRP39_N761050.1812.6
TkA02G019830PF05843Suf761030.2210.7
TkA02G019830PF13812PPR_3771241.1e-1454.9
TkA02G019830PF23276TPR_24771119.4e-1245.7
TkA02G019830PF10366Vps39_1781020.1513.1
TkA02G019830PF01535PPR791043.3e-54178.1
TkA02G019830PF12854PPR_11091223.7e-42142.5
TkA02G019830PF01535PPR1191433.3e-54178.1
TkA02G019830PF01535PPR1551723.3e-54178.1
TkA02G019830PF12854PPR_11551683.7e-42142.5
TkA02G019830PF07719TPR_21551700.001119.6

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/mitochondrial37.300%Swiss-ProtMedium
Q9FJY7Arabidopsis thalianasp|Q9FJY7|PP449_ARATH Pentatricopeptide repeat-containing protein At5g6652044.500%Swiss-ProtMedium
Q9FI80Arabidopsis thalianasp|Q9FI80|PP425_ARATH Pentatricopeptide repeat-containing protein At5g4891040.600%Swiss-ProtMedium
Q9C6T2Arabidopsis thalianasp|Q9C6T2|PPR68_ARATH Pentatricopeptide repeat-containing protein At1g3192034.500%Swiss-ProtMedium
Q7Y211Arabidopsis thalianasp|Q7Y211|PP285_ARATH Pentatricopeptide repeat-containing protein At3g57430, chloroplastic35.600%Swiss-ProtMedium

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