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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

TkA05G346420
Reference: TK1151 Chr: Chr05 Coordinates: 85872341-85874278 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1833 bp · TkA05G346420|TK1151|cDNA

CTTCATCAGTGCTGCCCCACGTCAACTCATCAAACTCGACAATATCTAAAGATTTGAGGAATTACACAACTTTACCTTATCAAGCTTCGATTCTACTCCAGTTCTTCAATGGCAATCCTAGTTCCAGAGGTAACTCAATTATCTTGCCCGAATACCAAACCCACGAAGACACCAAGCAAATTAATAACCGGGGAAGCCAACCCACTTTCTCTACTACCCAAATGCACCTATTTGAAAGAAATAAAGCAGATCCAAGCTCA...

CDS

Download CDS FASTA

1698 bp · TkA05G346420|TK1151|CDS

ATGGCAATCCTAGTTCCAGAGGTAACTCAATTATCTTGCCCGAATACCAAACCCACGAAGACACCAAGCAAATTAATAACCGGGGAAGCCAACCCACTTTCTCTACTACCCAAATGCACCTATTTGAAAGAAATAAAGCAGATCCAAGCTCATTCAATAAAAACCGACCTTCATCGCACCATGTATTGGGCCACAAAGGTGATAAATCACTGCACGCTCGACCCTACTCCTTCCTCAATGAACCACGCCCACCAACTGTT...

Protein

Download Protein FASTA

565 aa · TkA05G346420|TK1151|PROTEIN

MAILVPEVTQLSCPNTKPTKTPSKLITGEANPLSLLPKCTYLKEIKQIQAHSIKTDLHRTMYWATKVINHCTLDPTPSSMNHAHQLFDQIPHPDVILFNFMARGYSRSHTPLQSLLLFIRITSMGIAPDHYTFPSLLKSCANAKALQEAQLVFDRIKEPCAVTYNAIITGLVQNNRPNDALLMFQEMQNKSFKPTDVTMLSVLQSCSLLGALNTGKWVHEYIKSNRFDQYVKVNTTLIDMYTKCGDLNNAVLVFENMGFK...

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 IDTkA05G346420
TK1151 IDTkA05G346420
OH-1004 IDLXL04_021052
Relationship / confidenceMulti Source To Oh1004 / Complex relationship
Protein identity (%)93.300
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 IDTkA05G346420
LocationChr05:85872341-85874278 (+)
DescriptionSimilar to PCMP-H26: Pentatricopeptide repeat-containing protein At2g02980, chloroplastic
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
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
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
At3g23330 Putative pentatricopeptide repeat-containing protein At3g23330. No verified direct reference in this release
At3g47530 Pentatricopeptide repeat-containing protein At3g47530. No verified direct reference in this release
At4g37380 Plays a major role in single RNA editing events in chloroplasts. 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_021052 · 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:0016556 mRNA modification Biological Process
GO:0031425 chloroplast RNA processing 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:0004519 endonuclease activity Molecular Function
GO:0008270 zinc ion binding Molecular Function
KEGG gene cross-reference
ath:AT1G11290
ath:AT2G02980
ath:AT4G37380
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.

Mitochondrion0.698
Rank 1 · TkA05G346420 · TK1151
Plastid0.160
Rank 2 · TkA05G346420 · TK1151
Nucleus0.055
Rank 3 · TkA05G346420 · TK1151
Cytoplasm0.032
Rank 4 · TkA05G346420 · TK1151
Cell membrane0.006
Rank 5 · TkA05G346420 · 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.

PF14432DYW_deaminase49-70 aa
PF22330Rib_mS39_PPR70-106 aa
PF13041PPR_280-89 aa
PF12854PPR_181-89 aa
PF12854PPR_192-104 aa
PF13041PPR_293-142 aa
PF29070MSC6_N96-178 aa
PF01535PPR97-126 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA05G346420PF14432DYW_deaminase49701.5e-35121.6
TkA05G346420PF22330Rib_mS39_PPR701060.0002921.4
TkA05G346420PF13041PPR_280893.5e-41139.8
TkA05G346420PF12854PPR_181892.6e-2691.8
TkA05G346420PF12854PPR_1921042.6e-2691.8
TkA05G346420PF13041PPR_2931423.5e-41139.8
TkA05G346420PF29070MSC6_N961784.7e-1246.4
TkA05G346420PF01535PPR971261.3e-33113.5
TkA05G346420PF17177PPR_long1182116.2e-0833.0
TkA05G346420PF23276TPR_241211565.1e-0936.8
TkA05G346420PF13812PPR_31231681.9e-1867.0
TkA05G346420PF12854PPR_11241552.6e-2691.8
TkA05G346420PF01535PPR1351581.3e-33113.5
TkA05G346420PF22330Rib_mS39_PPR1451730.0002921.4
TkA05G346420PF13041PPR_21592063.5e-41139.8
TkA05G346420PF12854PPR_11611882.6e-2691.8

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
Q8LK93Arabidopsis thalianasp|Q8LK93|PP145_ARATH Pentatricopeptide repeat-containing protein At2g02980, chloroplastic50.700%Swiss-ProtHigh
Q3E6Q1Arabidopsis thalianasp|Q3E6Q1|PPR32_ARATH Pentatricopeptide repeat-containing protein At1g11290, chloroplastic35.000%Swiss-ProtMedium
Q9LW63Arabidopsis thalianasp|Q9LW63|PP251_ARATH Putative pentatricopeptide repeat-containing protein At3g2333035.600%Swiss-ProtMedium
Q9SN85Arabidopsis thalianasp|Q9SN85|PP267_ARATH Pentatricopeptide repeat-containing protein At3g4753036.100%Swiss-ProtMedium
Q9SZT8Arabidopsis thalianasp|Q9SZT8|PP354_ARATH Pentatricopeptide repeat-containing protein ELI1, chloroplastic36.100%Swiss-ProtMedium

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