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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

TkA04G102860
Reference: TK1151 Chr: Chr04 Coordinates: 26766793-26767380 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

588 bp · TkA04G102860|TK1151|cDNA

ATGGGCTGCTTGATAGACGCACGAAAGGTGTTCGATGAAATGCTCGACAGAAACGTTGTCTCTTGGACCGCAATGCTTGGTGGGTACCTAAAATACGGGTTTGAAGATGAAGCGATGAAATTATTTACAGACTTTGTTAACAGTGGAATCAGGGCAAATCCCAAAACTTTCGTGTGCCTATTGAATCTTTGTAGCAGGAGATTAGACTTCGAGCTTGGAAGACAACTCCATGCTTGTGTATTCAAAGGGCGTTTTGGTAA...

CDS

Download CDS FASTA

588 bp · TkA04G102860|TK1151|CDS

ATGGGCTGCTTGATAGACGCACGAAAGGTGTTCGATGAAATGCTCGACAGAAACGTTGTCTCTTGGACCGCAATGCTTGGTGGGTACCTAAAATACGGGTTTGAAGATGAAGCGATGAAATTATTTACAGACTTTGTTAACAGTGGAATCAGGGCAAATCCCAAAACTTTCGTGTGCCTATTGAATCTTTGTAGCAGGAGATTAGACTTCGAGCTTGGAAGACAACTCCATGCTTGTGTATTCAAAGGGCGTTTTGGTAA...

Protein

Download Protein FASTA

195 aa · TkA04G102860|TK1151|PROTEIN

MGCLIDARKVFDEMLDRNVVSWTAMLGGYLKYGFEDEAMKLFTDFVNSGIRANPKTFVCLLNLCSRRLDFELGRQLHACVFKGRFGNLIVDSSLVYFYAQCGHLDEAFNVFDKMPGRDVVSWTTIITACSQHGQTKEAFTLFSQMLSDGFAPNEFTVCSVLKACGEEQALKFGRQLHATVVKKLFKNDVFRNFFS

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 IDTkA04G102860
TK1151 IDTkA04G102860
OH-1004 IDLXL04_035849
Relationship / confidenceRbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)92.600
Protein coverage (%)TK1151 97.436 / OH-1004 26.536
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 IDTkA04G102860
LocationChr04:26766793-26767380 (+)
DescriptionSimilar to PCMP-A2: Pentatricopeptide repeat-containing protein At4g18520, chloroplastic
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At4g18520 Required for proper chloroplast development.
Seedling Lethal1, a pentatricopeptide repeat protein lacking an E/E+ or DYW domain in Arabidopsis, is involved in plastid gene expression and early chloroplast development.2013 · DOI: 10.1104/pp.113.227199
PPR protein PDM1/SEL1 is involved in RNA editing and splicing of plastid genes in Arabidopsis thaliana.2015 · DOI: 10.1007/s11120-015-0171-4
At3g13770 Putative pentatricopeptide repeat-containing protein At3g13770, mitochondrial. No verified direct reference in this release
At2g34400 Pentatricopeptide repeat-containing protein At2g34400. No verified direct reference in this release
At5g52630 Putative pentatricopeptide repeat-containing protein At5g52630. No verified direct reference in this release
At3g20730 Pentatricopeptide repeat-containing protein At3g20730. 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_035849 · 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:0008380 RNA splicing Biological Process
GO:0009451 RNA modification Biological Process
GO:0016556 mRNA modification Biological Process
GO:1900865 chloroplast RNA modification Biological Process
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:AT4G18520
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.

Mitochondrion0.669
Rank 1 · TkA04G102860 · TK1151
Plastid0.185
Rank 2 · TkA04G102860 · TK1151
Nucleus0.042
Rank 3 · TkA04G102860 · TK1151
Cytoplasm0.041
Rank 4 · TkA04G102860 · TK1151
Peroxisome0.011
Rank 5 · TkA04G102860 · 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.

PF01535PPR2-19 aa
PF13041PPR_26-19 aa
PF12854PPR_16-14 aa
PF13428TPR_146-17 aa
PF12854PPR_115-42 aa
PF13812PPR_316-65 aa
PF13041PPR_217-65 aa
PF24603TPR_3018-48 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA04G102860PF01535PPR2193.4e-2793.5
TkA04G102860PF13041PPR_26194.6e-30104.2
TkA04G102860PF12854PPR_16143.7e-1659.3
TkA04G102860PF13428TPR_146170.0005521.1
TkA04G102860PF12854PPR_115423.7e-1659.3
TkA04G102860PF13812PPR_316653.3e-1247.0
TkA04G102860PF13041PPR_217654.6e-30104.2
TkA04G102860PF24603TPR_3018480.2812.4
TkA04G102860PF01535PPR20503.4e-2793.5
TkA04G102860PF13428TPR_1421450.0005521.1
TkA04G102860PF29070MSC6_N24636.4e-0522.9
TkA04G102860PF23276TPR_2424620.0006720.3
TkA04G102860PF10037MRP-S2724650.01714.8
TkA04G102860PF17177PPR_long37671.2e-0732.0
TkA04G102860PF13762MNE138660.02715.2
TkA04G102860PF01535PPR56763.4e-2793.5

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
Q0WNP3Arabidopsis thalianasp|Q0WNP3|PP319_ARATH Pentatricopeptide repeat-containing protein At4g18520, chloroplastic60.700%Swiss-ProtHigh
Q9LIC3Arabidopsis thalianasp|Q9LIC3|PP227_ARATH Putative pentatricopeptide repeat-containing protein At3g13770, mitochondrial39.600%Swiss-ProtMedium
O64705Arabidopsis thalianasp|O64705|PP184_ARATH Pentatricopeptide repeat-containing protein At2g3440036.200%Swiss-ProtMedium
Q9LTF4Arabidopsis thalianasp|Q9LTF4|PP429_ARATH Putative pentatricopeptide repeat-containing protein At5g5263035.600%Swiss-ProtMedium
Q9LT48Arabidopsis thalianasp|Q9LT48|PP244_ARATH Pentatricopeptide repeat-containing protein At3g2073036.800%Swiss-ProtMedium

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