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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

TkA02G054800
Reference: TK1151 Chr: Chr02 Coordinates: 14314580-14317160 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2487 bp · TkA02G054800|TK1151|cDNA

GCCACTATCCAAAGACTTAGTGCCATCAGCCGTTCTTTCAATGCTCAAGCTACTAATTGGAGATTGCTTCCAAATCTCAAAAGCAACCACTTTCCAAGACTTCTTTCTTCTGGAAGGTTTCTTTATACCCAAACTTCATTAGATGACAGCTGGACCAATACCAGAGAGCTAAACATCGACCTTCTATTTCACTCATGCACAAAAACCCACCATGCAAACCGCCTCCATGCCCTCCTCATCATTCTTGGAAAAATCCAAAG...

CDS

Download CDS FASTA

2487 bp · TkA02G054800|TK1151|CDS

GCCACTATCCAAAGACTTAGTGCCATCAGCCGTTCTTTCAATGCTCAAGCTACTAATTGGAGATTGCTTCCAAATCTCAAAAGCAACCACTTTCCAAGACTTCTTTCTTCTGGAAGGTTTCTTTATACCCAAACTTCATTAGATGACAGCTGGACCAATACCAGAGAGCTAAACATCGACCTTCTATTTCACTCATGCACAAAAACCCACCATGCAAACCGCCTCCATGCCCTCCTCATCATTCTTGGAAAAATCCAAAG...

Protein

Download Protein FASTA

828 aa · TkA02G054800|TK1151|PROTEIN

ATIQRLSAISRSFNAQATNWRLLPNLKSNHFPRLLSSGRFLYTQTSLDDSWTNTRELNIDLLFHSCTKTHHANRLHALLIILGKIQSLFISTRLVNLYANLGNISLSQQTFDQIQNKDVYTWNSMVSSYVRNGSHNDAVNCLYKMLKHQIKPDFYTFPPVLKACRDIKNGKRIHCLISKTGLEWDVYVAASLVHMYCRFGGFDAAYGIFTNMPFRDMGCWNAIISGFCQNGKGEKALEILNEMKFEGIKLDSVTVATILP...

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 IDTkA02G054800
TK1151 IDTkA02G054800
OH-1004 IDLXL04_017317
Relationship / confidenceMulti Source To Oh1004 / Complex relationship
Protein identity (%)98.400
Protein coverage (%)TK1151 100.000 / OH-1004 94.413
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 IDTkA02G054800
LocationChr02:14314580-14317160 (-)
DescriptionSimilar to EMB2758: Pentatricopeptide repeat-containing protein At4g33990
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At4g33990 Pentatricopeptide repeat-containing protein At4g33990. 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
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
At4g30700 Pentatricopeptide repeat-containing protein At4g30700. No verified direct reference in this release
At3g26782 Pentatricopeptide repeat-containing protein At3g26782, mitochondrial. 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_017317 · 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:0000963 mitochondrial RNA processing Biological Process
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:0080156 mitochondrial mRNA 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
KEGG gene cross-reference
ath:AT1G11290
ath:AT3G57430
ath:AT4G30700
ath:AT4G33990
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.

Mitochondrion0.665
Rank 1 · TkA02G054800 · TK1151
Plastid0.197
Rank 2 · TkA02G054800 · TK1151
Nucleus0.047
Rank 3 · TkA02G054800 · TK1151
Cytoplasm0.033
Rank 4 · TkA02G054800 · TK1151
Cell membrane0.006
Rank 5 · TkA02G054800 · 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.

PF05094LEF-976-144 aa
PF13812PPR_392-115 aa
PF01535PPR93-118 aa
PF19189Mtf296-125 aa
PF23276TPR_24104-211 aa
PF17177PPR_long108-169 aa
PF24760TPR_IF140_C111-145 aa
PF29070MSC6_N113-206 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA02G054800PF05094LEF-9761440.02613.9
TkA02G054800PF13812PPR_3921151.8e-34118.4
TkA02G054800PF01535PPR931181.9e-69225.9
TkA02G054800PF19189Mtf2961250.1512.4
TkA02G054800PF23276TPR_241042111.4e-1867.8
TkA02G054800PF17177PPR_long1081696.7e-1142.7
TkA02G054800PF24760TPR_IF140_C1111450.01816.2
TkA02G054800PF29070MSC6_N1132064.3e-1969.6
TkA02G054800PF13041PPR_21171642.2e-73242.9
TkA02G054800PF12854PPR_11181451.3e-46156.7
TkA02G054800PF13812PPR_31181641.8e-34118.4
TkA02G054800PF01535PPR1201491.9e-69225.9
TkA02G054800PF10366Vps39_11211490.0003821.4
TkA02G054800PF12921ATP131231452.2e-0525.0
TkA02G054800PF12854PPR_11501571.3e-46156.7
TkA02G054800PF17177PPR_long1732656.7e-1142.7

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
O81767Arabidopsis thalianasp|O81767|PP348_ARATH Pentatricopeptide repeat-containing protein At4g3399054.200%Swiss-ProtHigh
Q3E6Q1Arabidopsis thalianasp|Q3E6Q1|PPR32_ARATH Pentatricopeptide repeat-containing protein At1g11290, chloroplastic37.100%Swiss-ProtMedium
Q7Y211Arabidopsis thalianasp|Q7Y211|PP285_ARATH Pentatricopeptide repeat-containing protein At3g57430, chloroplastic36.000%Swiss-ProtMedium
Q9SUH6Arabidopsis thalianasp|Q9SUH6|PP341_ARATH Pentatricopeptide repeat-containing protein At4g3070037.600%Swiss-ProtMedium
Q9LW32Arabidopsis thalianasp|Q9LW32|PP258_ARATH Pentatricopeptide repeat-containing protein At3g26782, mitochondrial43.000%Swiss-ProtMedium

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