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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

TkA01G598920
Reference: TK1151 Chr: Chr01 Coordinates: 150846798-150848867 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1788 bp · TkA01G598920|TK1151|cDNA

ATGCTCCGCAACGGTCTTTTCTCCGACCCCTTTTCAGCCAGTATCCTCGTCTCCGCTTTTGCCCTTTCTCCTTTGCAAGACGTCGATTACGCCCACAAACTGTTCGACCAAATTCCTAAACCAAATATCTACACTTGGAACGCGCTCATTCGCGCTTACTCTTCAAGTCAAGTTCCCATCCAAAGCCTCTCGATTTTCACCCAAATGTTTTACCGTTCTGATGAAGTGTTACCCAACAAGTTCACTTACCCTTTTGTAAT...

CDS

Download CDS FASTA

1788 bp · TkA01G598920|TK1151|CDS

ATGCTCCGCAACGGTCTTTTCTCCGACCCCTTTTCAGCCAGTATCCTCGTCTCCGCTTTTGCCCTTTCTCCTTTGCAAGACGTCGATTACGCCCACAAACTGTTCGACCAAATTCCTAAACCAAATATCTACACTTGGAACGCGCTCATTCGCGCTTACTCTTCAAGTCAAGTTCCCATCCAAAGCCTCTCGATTTTCACCCAAATGTTTTACCGTTCTGATGAAGTGTTACCCAACAAGTTCACTTACCCTTTTGTAAT...

Protein

Download Protein FASTA

595 aa · TkA01G598920|TK1151|PROTEIN

MLRNGLFSDPFSASILVSAFALSPLQDVDYAHKLFDQIPKPNIYTWNALIRAYSSSQVPIQSLSIFTQMFYRSDEVLPNKFTYPFVIKAASELLDMRLGEVLLGMAIKMSLGSDVFILNSLIHFYSSCKCLNSAYRVFLNIPTYGIKESLNLNNALLDMYTKCGSLEDAQNLFDKMPEKDIVSWTTMVVGYAKSGDYITARKHFNTMPNQEVSNKAKPDSVTMVTTLSACAQMGAMDMGGWIHVYIKKHGFNLTCHLTTS...

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 IDTkA01G598920
TK1151 IDTkA01G598920
OH-1004 IDLXL04_000623
Relationship / confidenceMulti Source To Oh1004 / Complex relationship
Protein identity (%)82.500
Protein coverage (%)TK1151 100.000 / OH-1004 92.236
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 IDTkA01G598920
LocationChr01:150846798-150848867 (-)
DescriptionSimilar to PCMP-H33: Pentatricopeptide repeat-containing protein At2g29760, chloroplastic
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At2g29760 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
At5g48910 Pentatricopeptide repeat-containing protein At5g48910. No verified direct reference in this release
At1g08070 Involved in multiple sites RNA editing events in chloroplasts. No verified direct reference in this release
At5g40405 Putative pentatricopeptide repeat-containing protein At5g40405. No verified direct reference in this release
At1g59720 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

Rice

No hit for this species in the current source table.

Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_000623 · 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:0009409 response to cold Biological Process
GO:0009451 RNA modification Biological Process
GO:0009644 response to high light intensity Biological Process
GO:0010027 thylakoid membrane organization Biological Process
GO:0010207 photosystem II assembly Biological Process
GO:0010380 regulation of chlorophyll biosynthetic process Biological Process
GO:0016556 mRNA modification Biological Process
GO:0031425 chloroplast RNA processing Biological Process
GO:0048564 photosystem I assembly Biological Process
GO:0080156 mitochondrial mRNA modification Biological Process
GO:0005739 mitochondrion Cellular Component
KEGG gene cross-reference
ath:AT1G08070
ath:AT2G22410
ath:AT2G29760
ath:AT3G12770
ath:AT3G22690
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.

Mitochondrion0.633
Rank 1 · TkA01G598920 · TK1151
Plastid0.204
Rank 2 · TkA01G598920 · TK1151
Nucleus0.066
Rank 3 · TkA01G598920 · TK1151
Cytoplasm0.035
Rank 4 · TkA01G598920 · TK1151
Peroxisome0.006
Rank 5 · TkA01G598920 · 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.

PF13041PPR_21-21 aa
PF29070MSC6_N26-63 aa
PF01535PPR27-38 aa
PF13041PPR_227-38 aa
PF12854PPR_127-37 aa
PF22330Rib_mS39_PPR27-51 aa
PF12854PPR_140-53 aa
PF13812PPR_340-89 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA01G598920PF13041PPR_21211.3e-42144.4
TkA01G598920PF29070MSC6_N26639.2e-1658.6
TkA01G598920PF01535PPR27381.3e-46154.4
TkA01G598920PF13041PPR_227381.3e-42144.4
TkA01G598920PF12854PPR_127374.7e-2897.3
TkA01G598920PF22330Rib_mS39_PPR27510.2212.0
TkA01G598920PF12854PPR_140534.7e-2897.3
TkA01G598920PF13812PPR_340892.8e-1866.5
TkA01G598920PF13041PPR_241891.3e-42144.4
TkA01G598920PF01535PPR44691.3e-46154.4
TkA01G598920PF17177PPR_long441754.8e-1039.9
TkA01G598920PF23276TPR_2446805e-0936.9
TkA01G598920PF29834SOV1_C59890.07112.8
TkA01G598920PF12854PPR_176874.7e-2897.3
TkA01G598920PF29834SOV1_C1021380.07112.8
TkA01G598920PF13041PPR_21141451.3e-42144.4

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
O82380Arabidopsis thalianasp|O82380|PP175_ARATH Pentatricopeptide repeat-containing protein At2g29760, chloroplastic50.100%Swiss-ProtHigh
Q9FI80Arabidopsis thalianasp|Q9FI80|PP425_ARATH Pentatricopeptide repeat-containing protein At5g4891041.700%Swiss-ProtMedium
Q9LN01Arabidopsis thalianasp|Q9LN01|PPR21_ARATH Pentatricopeptide repeat-containing protein At1g08070, chloroplastic38.400%Swiss-ProtMedium
Q9FND7Arabidopsis thalianasp|Q9FND7|PP410_ARATH Putative pentatricopeptide repeat-containing protein At5g4040538.500%Swiss-ProtMedium
Q0WQW5Arabidopsis thalianasp|Q0WQW5|PPR85_ARATH Pentatricopeptide repeat-containing protein At1g59720, chloroplastic/mitochondrial40.500%Swiss-ProtMedium

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