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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

TkA04G483460
Reference: TK1151 Chr: Chr04 Coordinates: 122141903-122144758 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2334 bp · TkA04G483460|TK1151|cDNA

ATGCATCTTCGCTCAAGAACTCCACTTAAAAATCTCTTCTTCAATGCCTTCAATAAAACCCATTTCATCTCCCTCTTCAAGAACTCTCCTCAGTCTTACACACAGAAGTCCTCTATTTCATCCTACTTCACTTCTCTACAACTCAGCCCACCTACACCTGAAACCCATTCACCCCTTAAAAGGAAACGCTCTCTTAAAAAGTGGGATAAAGAGAAGCTAAGACGGTATTCGGAAAAACTGCGTGACTGTGCTGCGAATCG...

CDS

Download CDS FASTA

2334 bp · TkA04G483460|TK1151|CDS

ATGCATCTTCGCTCAAGAACTCCACTTAAAAATCTCTTCTTCAATGCCTTCAATAAAACCCATTTCATCTCCCTCTTCAAGAACTCTCCTCAGTCTTACACACAGAAGTCCTCTATTTCATCCTACTTCACTTCTCTACAACTCAGCCCACCTACACCTGAAACCCATTCACCCCTTAAAAGGAAACGCTCTCTTAAAAAGTGGGATAAAGAGAAGCTAAGACGGTATTCGGAAAAACTGCGTGACTGTGCTGCGAATCG...

Protein

Download Protein FASTA

777 aa · TkA04G483460|TK1151|PROTEIN

MHLRSRTPLKNLFFNAFNKTHFISLFKNSPQSYTQKSSISSYFTSLQLSPPTPETHSPLKRKRSLKKWDKEKLRRYSEKLRDCAANRSLNEGKAIHKQIKNMEFGKQLHGEILKSGFFSDGHVGSSLVDLYAKCGDLENAEKVCLFLPEQNPVSWNSLLNGFALMGDNQKALNLFCKMKETETKFNKYTLSTILKGCASSKNLKVGQVLHSMAITSGCENEEFVSCNLVDMYSKCGQPYDALKVFSQIKSPDVVTWSAII...

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 IDTkA04G483460
TK1151 IDTkA04G483460
OH-1004 IDLXL04_038938
Relationship / confidenceMulti Source To Oh1004 / Complex relationship
Protein identity (%)80.800
Protein coverage (%)TK1151 100.000 / OH-1004 98.959
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 IDTkA04G483460
LocationChr04:122141903-122144758 (-)
DescriptionSimilar to PCMP-H42: Pentatricopeptide repeat-containing protein At4g13650
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
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
At3g49170 May play a role in embryogenesis. No verified direct reference in this release
At4g33170 Pentatricopeptide repeat-containing protein At4g33170. No verified direct reference in this release
At5g09950 Putative pentatricopeptide repeat-containing protein At5g09950. 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

Rice

No hit for this species in the current source table.

Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_038938 · 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: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:0008270 zinc ion binding Molecular Function
KEGG gene cross-reference
ath:AT3G57430
ath:AT4G13650
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.

Mitochondrion0.731
Rank 1 · TkA04G483460 · TK1151
Plastid0.158
Rank 2 · TkA04G483460 · TK1151
Nucleus0.048
Rank 3 · TkA04G483460 · TK1151
Cytoplasm0.039
Rank 4 · TkA04G483460 · TK1151
Cell membrane0.008
Rank 5 · TkA04G483460 · 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.

PF22470Histone_HNS_N62-97 aa
PF01535PPR100-117 aa
PF17177PPR_long107-144 aa
PF00637Clathrin120-144 aa
PF01535PPR125-143 aa
PF12854PPR_1125-143 aa
PF13041PPR_2126-143 aa
PF13812PPR_3126-143 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA04G483460PF22470Histone_HNS_N62970.113.3
TkA04G483460PF01535PPR1001171.1e-42142.0
TkA04G483460PF17177PPR_long1071445.1e-1143.1
TkA04G483460PF00637Clathrin1201440.006417.0
TkA04G483460PF01535PPR1251431.1e-42142.0
TkA04G483460PF12854PPR_11251439.2e-2690.0
TkA04G483460PF13041PPR_21261432.4e-57191.6
TkA04G483460PF13812PPR_31261431.4e-2589.8
TkA04G483460PF23276TPR_241261433.4e-0834.2
TkA04G483460PF13176TPR_71261440.1712.8
TkA04G483460PF10602RPN71271430.1312.7
TkA04G483460PF20431E_motif1471831.4e-2486.8
TkA04G483460PF29070MSC6_N1502032.6e-1040.7
TkA04G483460PF13041PPR_21511982.4e-57191.6
TkA04G483460PF12854PPR_11511799.2e-2690.0
TkA04G483460PF13812PPR_31521971.4e-2589.8

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
Q7Y211Arabidopsis thalianasp|Q7Y211|PP285_ARATH Pentatricopeptide repeat-containing protein At3g57430, chloroplastic32.700%Swiss-ProtMedium
Q5G1T1Arabidopsis thalianasp|Q5G1T1|PP272_ARATH Pentatricopeptide repeat-containing protein At3g49170, chloroplastic34.900%Swiss-ProtMedium
Q9SMZ2Arabidopsis thalianasp|Q9SMZ2|PP347_ARATH Pentatricopeptide repeat-containing protein At4g3317032.400%Swiss-ProtMedium
Q9FIB2Arabidopsis thalianasp|Q9FIB2|PP373_ARATH Putative pentatricopeptide repeat-containing protein At5g0995034.000%Swiss-ProtMedium
Q3E6Q1Arabidopsis thalianasp|Q3E6Q1|PPR32_ARATH Pentatricopeptide repeat-containing protein At1g11290, chloroplastic32.000%Swiss-ProtMedium

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