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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

TkA04G504450
Reference: TK1151 Chr: Chr04 Coordinates: 127414580-127417027 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2355 bp · TkA04G504450|TK1151|cDNA

AAAAAGACAAGTTCAAAATATGAACATTAGTGTAGTATCCACACTGTTTGGACCAATGCAGTATAACTTTCGCAACCACATCCACCGTCTTTCCAACATAGTTTGTGATGACGTTATCTTCTTTCTAAACCAAAAGCGAATCTACCATGAATGCCATGACCACCATTCCACATCCAATCGTCCCTGCCACCATCCACCGAAATCACTACAACCACCTCTTCAATTCAATCTCTGCTGCTTCGTCCCTTTCACACCTTAAG...

CDS

Download CDS FASTA

2181 bp · TkA04G504450|TK1151|CDS

ATGAATGCCATGACCACCATTCCACATCCAATCGTCCCTGCCACCATCCACCGAAATCACTACAACCACCTCTTCAATTCAATCTCTGCTGCTTCGTCCCTTTCACACCTTAAGCAAATCCACACCCAAATCCTCCGCTCTGGCCTTGACCGCTCCAATTCTCTCCTCATCAAACTCCTCCTCTCTGCCTGCACCATATCATCCCCATCCTTCGACTACGCTTTATCGGTCTTTTACCAAATGCACAACCGGGAACCCCA...

Protein

Download Protein FASTA

726 aa · TkA04G504450|TK1151|PROTEIN

MNAMTTIPHPIVPATIHRNHYNHLFNSISAASSLSHLKQIHTQILRSGLDRSNSLLIKLLLSACTISSPSFDYALSVFYQMHNREPHLSNKLLRELSRSGKPEKALLAYAKMREQGFVIDSFSLPPLLKASTRISALNEGMELQGFATKMDFVSDPYVQTGLVAMYAACGHIEDARLVFDKMSQRDIVAWDIMINGYCESGSYSHVLPLIEEMKRWNIIPDEKIFSTVLSACGRAGNLEFGKAFHEFITENKVIVDYNLQ...

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 IDTkA04G504450
TK1151 IDTkA04G504450
OH-1004 IDLXL04_000623
Relationship / confidenceNon Reciprocal Best Hit / Complex relationship
Protein identity (%)42.600
Protein coverage (%)TK1151 95.730 / OH-1004 93.842
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 IDTkA04G504450
LocationChr04:127414580-127417027 (-)
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
At4g14820 Pentatricopeptide repeat-containing protein At4g14820. No verified direct reference in this release
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
At1g08070 Involved in multiple sites RNA editing events in chloroplasts. No verified direct reference in this release
At3g08820 Putative pentatricopeptide repeat-containing protein At3g08820. No verified direct reference in this release
At3g46790 Required for the intergenic processing between chloroplast rsp7 and ndhB transcripts. 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_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.

Mitochondrion0.572
Rank 1 · TkA04G504450 · TK1151
Plastid0.270
Rank 2 · TkA04G504450 · TK1151
Nucleus0.064
Rank 3 · TkA04G504450 · TK1151
Cytoplasm0.035
Rank 4 · TkA04G504450 · TK1151
Cell membrane0.006
Rank 5 · TkA04G504450 · 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_long20-134 aa
PF29070MSC6_N25-101 aa
PF01535PPR71-83 aa
PF13041PPR_290-123 aa
PF13812PPR_390-116 aa
PF23276TPR_2491-130 aa
PF13428TPR_1491-115 aa
PF01535PPR92-117 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA04G504450PF17177PPR_long201341.9e-1247.8
TkA04G504450PF29070MSC6_N251012.6e-1040.7
TkA04G504450PF01535PPR71832.4e-58191.1
TkA04G504450PF13041PPR_2901231.7e-56188.8
TkA04G504450PF13812PPR_3901161.5e-2073.8
TkA04G504450PF23276TPR_24911302.5e-1350.8
TkA04G504450PF13428TPR_14911158.6e-0832.8
TkA04G504450PF01535PPR921172.4e-58191.1
TkA04G504450PF10602RPN7971150.001119.4
TkA04G504450PF00637Clathrin1551750.06313.7
TkA04G504450PF17049AEP11551970.1711.7
TkA04G504450PF14559TPR_191561846.6e-1039.9
TkA04G504450PF13812PPR_31601861.5e-2073.8
TkA04G504450PF13428TPR_141611848.6e-0832.8
TkA04G504450PF01535PPR1621862.4e-58191.1
TkA04G504450PF13041PPR_21621861.7e-56188.8

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
O23337Arabidopsis thalianasp|O23337|PP311_ARATH Pentatricopeptide repeat-containing protein At4g1482055.000%Swiss-ProtHigh
O82380Arabidopsis thalianasp|O82380|PP175_ARATH Pentatricopeptide repeat-containing protein At2g29760, chloroplastic42.500%Swiss-ProtMedium
Q9LN01Arabidopsis thalianasp|Q9LN01|PPR21_ARATH Pentatricopeptide repeat-containing protein At1g08070, chloroplastic35.000%Swiss-ProtMedium
Q9SR82Arabidopsis thalianasp|Q9SR82|PP219_ARATH Putative pentatricopeptide repeat-containing protein At3g0882033.000%Swiss-ProtMedium
Q9STF3Arabidopsis thalianasp|Q9STF3|PP265_ARATH Pentatricopeptide repeat-containing protein CRR2, chloroplastic35.400%Swiss-ProtMedium

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