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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

TkA04G116980
Reference: TK1151 Chr: Chr04 Coordinates: 30427925-30434243 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

4452 bp · TkA04G116980|TK1151|cDNA

TTGCTAAATTTGGATAATATCGGTGAGATTCTTCATGGGTTTGGAATAAAACTTGGATTACATGAAAATGAAACCCCTCATGTTTCTGTCCAAAATGCTCTTGTTTCATTGTACTCAAAATGTGGAGATATTGATGATGCGGAGAATATTTTTAGAGGGATTTATGATAAGGATTTGGTTTCTTGGAATACAATGACTAACGGATTTGCATCAAATGGAATGATTCTTGAAACATTTGATCATTTGAGGGAAATGCAATT...

CDS

Download CDS FASTA

1935 bp · TkA04G116980|TK1151|CDS

TTGCTAAATTTGGATAATATCGGTGAGATTCTTCATGGGTTTGGAATAAAACTTGGATTACATGAAAATGAAACCCCTCATGTTTCTGTCCAAAATGCTCTTGTTTCATTGTACTCAAAATGTGGAGATATTGATGATGCGGAGAATATTTTTAGAGGGATTTATGATAAGGATTTGGTTTCTTGGAATACAATGACTAACGGATTTGCATCAAATGGAATGATTCTTGAAACATTTGATCATTTGAGGGAAATGCAATT...

Protein

Download Protein FASTA

644 aa · TkA04G116980|TK1151|PROTEIN

LLNLDNIGEILHGFGIKLGLHENETPHVSVQNALVSLYSKCGDIDDAENIFRGIYDKDLVSWNTMTNGFASNGMILETFDHLREMQFREFIEPDIVTLLSVLSLCAESLLLEKGKTIHGFLIRRLYGFDLSINNSLMNMYAKCNKMDKAESLFMSIRDKDLVSWNTMILGYAKNGDSKFAQFLFKELLYRCLECSLSTVLSVLSSCDSPEFLKFGESLHSWQLKLGFLKNIHAVNSLLSMYTICGDLKASIALLRSVSMV...

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 IDTkA04G116980
TK1151 IDTkA04G116980
OH-1004 IDLXL04_035643
Relationship / confidenceRbh Sequence Supported / Probable
Protein identity (%)99.100
Protein coverage (%)TK1151 100.000 / OH-1004 71.318
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 IDTkA04G116980
LocationChr04:30427925-30434243 (-)
DescriptionSimilar to PCMP-E2: Pentatricopeptide repeat-containing protein At4g19220, mitochondrial
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At4g19220 Pentatricopeptide repeat-containing protein At4g19220, mitochondrial. No verified direct reference in this release
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
At1g18485 Pentatricopeptide repeat-containing protein At1g18485. No verified direct reference in this release
At4g33990 Pentatricopeptide repeat-containing protein At4g33990. No verified direct reference in this release
At4g30700 Pentatricopeptide repeat-containing protein At4g30700. 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_035643 · 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:0009451 RNA 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:AT1G69350
ath:AT4G13650
ath:AT4G19220
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.

Mitochondrion0.645
Rank 1 · TkA04G116980 · TK1151
Plastid0.176
Rank 2 · TkA04G116980 · TK1151
Nucleus0.050
Rank 3 · TkA04G116980 · TK1151
Cytoplasm0.028
Rank 4 · TkA04G116980 · TK1151
Cell membrane0.005
Rank 5 · TkA04G116980 · 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.

PF23276TPR_2421-52 aa
PF00637Clathrin21-52 aa
PF29070MSC6_N26-51 aa
PF13041PPR_227-51 aa
PF18768RNPP_C27-58 aa
PF13374TPR_1030-52 aa
PF13428TPR_1431-56 aa
PF17177PPR_long31-53 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA04G116980PF23276TPR_2421522.6e-0731.3
TkA04G116980PF00637Clathrin21520.01116.2
TkA04G116980PF29070MSC6_N26512.5e-1040.7
TkA04G116980PF13041PPR_227513.2e-46155.9
TkA04G116980PF18768RNPP_C27580.0002321.5
TkA04G116980PF13374TPR_1030520.1313.0
TkA04G116980PF13428TPR_1431560.009117.3
TkA04G116980PF17177PPR_long31530.1312.4
TkA04G116980PF13181TPR_831520.2712.2
TkA04G116980PF01535PPR32525.2e-51168.1
TkA04G116980PF12854PPR_132523.8e-2381.6
TkA04G116980PF13812PPR_332522.3e-1247.5
TkA04G116980PF13176TPR_733520.00119.7
TkA04G116980PF22330Rib_mS39_PPR44700.311.5
TkA04G116980PF13041PPR_2581053.2e-46155.9
TkA04G116980PF12854PPR_158863.8e-2381.6

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
O49680Arabidopsis thalianasp|O49680|PP324_ARATH Pentatricopeptide repeat-containing protein At4g19220, mitochondrial45.600%Swiss-ProtMedium
Q3E6Q1Arabidopsis thalianasp|Q3E6Q1|PPR32_ARATH Pentatricopeptide repeat-containing protein At1g11290, chloroplastic32.600%Swiss-ProtMedium
Q0WN60Arabidopsis thalianasp|Q0WN60|PPR48_ARATH Pentatricopeptide repeat-containing protein At1g1848533.100%Swiss-ProtMedium
O81767Arabidopsis thalianasp|O81767|PP348_ARATH Pentatricopeptide repeat-containing protein At4g3399031.500%Swiss-ProtMedium
Q9SUH6Arabidopsis thalianasp|Q9SUH6|PP341_ARATH Pentatricopeptide repeat-containing protein At4g3070031.900%Swiss-ProtMedium

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