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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

TkA01G549950
Reference: TK1151 Chr: Chr01 Coordinates: 138197476-138199563 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1767 bp · TkA01G549950|TK1151|cDNA

ATGCTCAAAGCTTGTACTTCTCTAAACCTCTTCTCACACGGCCTTTCTTTCCACCAACATTCCATCGTCAATGGTTACTCCTCCGATGCGTACATTTCTGCTTCCTTGATCAACCTATACGCCAAATTTGGGTACACCGATGTTGCCAGCAAAGTGTTCGATAATATGCCTGAGAGAAACGTTGTTCCCTGGACTGCGATTATCGGGTGTTATATTCAATCAGGGAAGGTGACCACTGCGTTTCAGATGTATAAACAAAT...

CDS

Download CDS FASTA

1767 bp · TkA01G549950|TK1151|CDS

ATGCTCAAAGCTTGTACTTCTCTAAACCTCTTCTCACACGGCCTTTCTTTCCACCAACATTCCATCGTCAATGGTTACTCCTCCGATGCGTACATTTCTGCTTCCTTGATCAACCTATACGCCAAATTTGGGTACACCGATGTTGCCAGCAAAGTGTTCGATAATATGCCTGAGAGAAACGTTGTTCCCTGGACTGCGATTATCGGGTGTTATATTCAATCAGGGAAGGTGACCACTGCGTTTCAGATGTATAAACAAAT...

Protein

Download Protein FASTA

588 aa · TkA01G549950|TK1151|PROTEIN

MLKACTSLNLFSHGLSFHQHSIVNGYSSDAYISASLINLYAKFGYTDVASKVFDNMPERNVVPWTAIIGCYIQSGKVTTAFQMYKQMQCEGIKPSSVTILAMLSGVSENTHVQSFHASAIQYGFDHHLSLANCLLNLYGKYGKITEAKTLFESMDNQDIVSWNSLLSAYALNDNVKEISQLFSRMRSSGLEPDQQTFGSLISSATRQGNPQIGKLVHAKTIISGFETDFQVKTSLITMYLKFRDLINAYKIFEATPNKDM...

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 IDTkA01G549950
TK1151 IDTkA01G549950
OH-1004 IDLXL04_001284
Relationship / confidenceMulti Source To Oh1004 / Complex relationship
Protein identity (%)83.800
Protein coverage (%)TK1151 100.000 / OH-1004 91.910
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 IDTkA01G549950
LocationChr01:138197476-138199563 (-)
DescriptionSimilar to PCMP-E99: Pentatricopeptide repeat-containing protein At4g04370
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At4g04370 Pentatricopeptide repeat-containing protein At4g04370. 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
At4g33990 Pentatricopeptide repeat-containing protein At4g33990. No verified direct reference in this release
At4g19191 Pentatricopeptide repeat-containing protein At4g19191, mitochondrial. No verified direct reference in this release
At3g01580 Putative pentatricopeptide repeat-containing protein At3g01580. 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_001284 · 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: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:AT3G63370
ath:AT4G04370
ath:AT4G21300
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.

Mitochondrion0.667
Rank 1 · TkA01G549950 · TK1151
Plastid0.174
Rank 2 · TkA01G549950 · TK1151
Nucleus0.043
Rank 3 · TkA01G549950 · TK1151
Cytoplasm0.034
Rank 4 · TkA01G549950 · TK1151
Cell membrane0.006
Rank 5 · TkA01G549950 · 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.

PF17177PPR_long16-104 aa
PF17049AEP116-74 aa
PF29070MSC6_N32-56 aa
PF13812PPR_334-63 aa
PF13041PPR_235-63 aa
PF01535PPR35-61 aa
PF12854PPR_135-56 aa
PF13428TPR_1435-55 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA01G549950PF17177PPR_long161043.3e-1247.0
TkA01G549950PF17049AEP116744.2e-0626.8
TkA01G549950PF29070MSC6_N32567.3e-1968.8
TkA01G549950PF13812PPR_334634.4e-2485.1
TkA01G549950PF13041PPR_235638.8e-61202.5
TkA01G549950PF01535PPR35619.8e-58189.2
TkA01G549950PF12854PPR_135563e-33114.0
TkA01G549950PF13428TPR_1435553.3e-0524.9
TkA01G549950PF28551UBA_RECQL135510.0116.7
TkA01G549950PF23276TPR_24361112.2e-1763.9
TkA01G549950PF20431E_motif36539.1e-0626.6
TkA01G549950PF24603TPR_3040870.0001522.8
TkA01G549950PF13041PPR_2591068.8e-61202.5
TkA01G549950PF12854PPR_159883e-33114.0
TkA01G549950PF13812PPR_360984.4e-2485.1
TkA01G549950PF01535PPR63929.8e-58189.2

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
Q9XE98Arabidopsis thalianasp|Q9XE98|PP303_ARATH Pentatricopeptide repeat-containing protein At4g0437043.800%Swiss-ProtMedium
Q3E6Q1Arabidopsis thalianasp|Q3E6Q1|PPR32_ARATH Pentatricopeptide repeat-containing protein At1g11290, chloroplastic35.000%Swiss-ProtMedium
O81767Arabidopsis thalianasp|O81767|PP348_ARATH Pentatricopeptide repeat-containing protein At4g3399033.700%Swiss-ProtMedium
P0C8Q2Arabidopsis thalianasp|P0C8Q2|PP323_ARATH Pentatricopeptide repeat-containing protein At4g19191, mitochondrial32.600%Swiss-ProtMedium
Q9SS97Arabidopsis thalianasp|Q9SS97|PP205_ARATH Putative pentatricopeptide repeat-containing protein At3g0158032.300%Swiss-ProtMedium

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