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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

TkA03G522090
Reference: TK1151 Chr: Chr03 Coordinates: 131006029-131008413 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2064 bp · TkA03G522090|TK1151|cDNA

ATGGATTTGGTTTCTAAGTGTGAAGACACCATTCTTGATTCAAGGACTTACTGTCACATCCTACAGCTTTGCGCAGATTTAAAGGCTCTGCATCATGGCAAGACAGTTCATAACTTGATATGTTCGAGGGGTATTGAACTTGATTCCGTTCTGGGTTCAAAGCTCGTGTTTATGTATGTGAGTTGTGGGGATGTGAGAGAAGGGAGACGGATTTTCGATAACATTACAAATCATCATGTTTTTCTTTGGAACTTTATGAT...

CDS

Download CDS FASTA

2064 bp · TkA03G522090|TK1151|CDS

ATGGATTTGGTTTCTAAGTGTGAAGACACCATTCTTGATTCAAGGACTTACTGTCACATCCTACAGCTTTGCGCAGATTTAAAGGCTCTGCATCATGGCAAGACAGTTCATAACTTGATATGTTCGAGGGGTATTGAACTTGATTCCGTTCTGGGTTCAAAGCTCGTGTTTATGTATGTGAGTTGTGGGGATGTGAGAGAAGGGAGACGGATTTTCGATAACATTACAAATCATCATGTTTTTCTTTGGAACTTTATGAT...

Protein

Download Protein FASTA

687 aa · TkA03G522090|TK1151|PROTEIN

MDLVSKCEDTILDSRTYCHILQLCADLKALHHGKTVHNLICSRGIELDSVLGSKLVFMYVSCGDVREGRRIFDNITNHHVFLWNFMMNAYGKMGDYQEAVSLFKIMQEVGVAPDSYTFSCILKSLAALGNENSGEIIHGYVLKSKVGLDITVVNSMIAFYFKRGNTDNAHKLFDHLPERDVITWNTMISGYVANSLPQKGFSVFSEMLGSHVSVDLTTMVTVLVACSSMGALTLGQTVHAYGVKTTFNKKTKFNNTLLDM...

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 IDTkA03G522090
TK1151 IDTkA03G522090
OH-1004 IDLXL04_010357
Relationship / confidenceMulti Source To Oh1004 / Complex relationship
Protein identity (%)82.200
Protein coverage (%)TK1151 100.000 / OH-1004 89.616
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 IDTkA03G522090
LocationChr03:131006029-131008413 (+)
DescriptionSimilar to DOT4: Pentatricopeptide repeat-containing protein DOT4, chloroplastic
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At4g18750 Plays a major role in single RNA editing events in chloroplasts.
Identification of two pentatricopeptide repeat genes required for RNA editing and zinc binding by C-terminal cytidine deaminase-like domains.2013 · DOI: 10.1074/jbc.m113.485755
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
At4g13650 Pentatricopeptide repeat-containing protein At4g13650. No verified direct reference in this release
At5g16860 Pentatricopeptide repeat-containing protein At5g16860. No verified direct reference in this release
At3g49142 Putative pentatricopeptide repeat-containing protein At3g49142. 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_010357 · 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:0009416 response to light stimulus Biological Process
GO:0009451 RNA modification Biological Process
GO:0009658 chloroplast organization 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:0005739 mitochondrion Cellular Component
GO:0009507 chloroplast Cellular Component
KEGG gene cross-reference
ath:AT1G11290
ath:AT1G15510
ath:AT3G03580
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.

Mitochondrion0.681
Rank 1 · TkA03G522090 · TK1151
Plastid0.172
Rank 2 · TkA03G522090 · TK1151
Nucleus0.057
Rank 3 · TkA03G522090 · TK1151
Cytoplasm0.031
Rank 4 · TkA03G522090 · TK1151
Cell membrane0.007
Rank 5 · TkA03G522090 · 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.

PF13812PPR_312-31 aa
PF13041PPR_213-49 aa
PF17177PPR_long15-63 aa
PF23276TPR_2419-80 aa
PF13812PPR_343-93 aa
PF01535PPR57-74 aa
PF13041PPR_258-74 aa
PF12895ANAPC378-103 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA03G522090PF13812PPR_312311.8e-1970.3
TkA03G522090PF13041PPR_213492.1e-68226.9
TkA03G522090PF17177PPR_long15633.9e-1659.8
TkA03G522090PF23276TPR_2419802.7e-1660.4
TkA03G522090PF13812PPR_343931.8e-1970.3
TkA03G522090PF01535PPR57743.8e-61199.9
TkA03G522090PF13041PPR_258742.1e-68226.9
TkA03G522090PF12895ANAPC3781030.04114.9
TkA03G522090PF13041PPR_2801262.1e-68226.9
TkA03G522090PF12854PPR_1801065e-36122.8
TkA03G522090PF01535PPR821113.8e-61199.9
TkA03G522090PF13428TPR_14821042.2e-0525.4
TkA03G522090PF13812PPR_3831231.8e-1970.3
TkA03G522090PF24760TPR_IF140_C831070.03215.4
TkA03G522090PF23276TPR_24841742.7e-1660.4
TkA03G522090PF17177PPR_long852303.9e-1659.8

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
Q9SN39Arabidopsis thalianasp|Q9SN39|PP320_ARATH Pentatricopeptide repeat-containing protein DOT4, chloroplastic43.700%Swiss-ProtMedium
Q3E6Q1Arabidopsis thalianasp|Q3E6Q1|PPR32_ARATH Pentatricopeptide repeat-containing protein At1g11290, chloroplastic33.700%Swiss-ProtMedium
Q9SVP7Arabidopsis thalianasp|Q9SVP7|PP307_ARATH Pentatricopeptide repeat-containing protein At4g1365032.100%Swiss-ProtMedium
Q9LFL5Arabidopsis thalianasp|Q9LFL5|PP390_ARATH Pentatricopeptide repeat-containing protein At5g1686032.200%Swiss-ProtMedium
P0C899Arabidopsis thalianasp|P0C899|PP271_ARATH Putative pentatricopeptide repeat-containing protein At3g4914233.800%Swiss-ProtMedium

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