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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

TkA04G058500
Reference: TK1151 Chr: Chr04 Coordinates: 15594797-15596711 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1074 bp · TkA04G058500|TK1151|cDNA

ATGCCCGTTATCGCCATTACTTCTTCCAATCGCCATTACTGCTGGTCGCCTACCTGCTCGCCATCGAATCCGATTGCTTCTCTGGACGCTCGCCATTACTTCCAATCGCCATTATGGAGATTCCGGTCTTTTGGCGATTACAGTGGTGATTGGGATCTTTATTTCTTCATCTCCATAAGGCTGATGTTACCTGCTGTTGCTACCTGTTCTTATCTACCTGTTCTTTACCCTGGAATTTGCTGTGACGAGAACGTTATCTT...

CDS

Download CDS FASTA

1074 bp · TkA04G058500|TK1151|CDS

ATGCCCGTTATCGCCATTACTTCTTCCAATCGCCATTACTGCTGGTCGCCTACCTGCTCGCCATCGAATCCGATTGCTTCTCTGGACGCTCGCCATTACTTCCAATCGCCATTATGGAGATTCCGGTCTTTTGGCGATTACAGTGGTGATTGGGATCTTTATTTCTTCATCTCCATAAGGCTGATGTTACCTGCTGTTGCTACCTGTTCTTATCTACCTGTTCTTTACCCTGGAATTTGCTGTGACGAGAACGTTATCTT...

Protein

Download Protein FASTA

357 aa · TkA04G058500|TK1151|PROTEIN

MPVIAITSSNRHYCWSPTCSPSNPIASLDARHYFQSPLWRFRSFGDYSGDWDLYFFISIRLMLPAVATCSYLPVLYPGICCDENVIFDSRAVAHALTPIFISNRSSSFKRHCSQSSPSEFSTKPILNHQLPGPVSIISSFAQNDLPILALQYFKKMIDYGIRPDDHIFPSALKASAILSNYNIGRSVHCLSLKTRYDSDVFVASSVVDMYAKCGQIQDARNMFDEMPVKNVVSWSGMIYGYSQLNENEEALLLFKQALSN...

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 IDTkA04G058500
TK1151 IDTkA04G058500
OH-1004 IDLXL04_036278
Relationship / confidenceRbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)81.500
Protein coverage (%)TK1151 90.476 / OH-1004 43.869
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 IDTkA04G058500
LocationChr04:15594797-15596711 (+)
DescriptionSimilar to PCMP-H52: Putative pentatricopeptide repeat-containing protein At5g52630
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At5g52630 Putative pentatricopeptide repeat-containing protein At5g52630. No verified direct reference in this release
At5g04780 Pentatricopeptide repeat-containing protein At5g04780, mitochondrial. No verified direct reference in this release
At2g33680 Pentatricopeptide repeat-containing protein At2g33680. No verified direct reference in this release
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
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_036278 · 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:0009451 RNA modification Biological Process
GO:0010214 seed coat development Biological Process
GO:0016554 cytidine to uridine editing Biological Process
GO:0140547 acquisition of seed longevity Biological Process
GO:0005739 mitochondrion Cellular Component
GO:0009507 chloroplast Cellular Component
GO:0003723 RNA binding Molecular Function
GO:0008270 zinc ion binding Molecular Function
KEGG gene cross-reference
ath:AT3G24000
ath:AT4G02750
ath:AT5G52630
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.

Plastid0.518
Rank 1 · TkA04G058500 · TK1151
Mitochondrion0.312
Rank 2 · TkA04G058500 · TK1151
Nucleus0.077
Rank 3 · TkA04G058500 · TK1151
Cytoplasm0.048
Rank 4 · TkA04G058500 · TK1151
Cell membrane0.008
Rank 5 · TkA04G058500 · 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.

PF01535PPR135-161 aa
PF13041PPR_2136-166 aa
PF29070MSC6_N136-180 aa
PF17177PPR_long149-231 aa
PF00515TPR_1149-157 aa
PF13041PPR_2199-231 aa
PF01535PPR204-230 aa
PF12854PPR_1204-226 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA04G058500PF01535PPR1351611e-2073.2
TkA04G058500PF13041PPR_21361662.5e-1763.4
TkA04G058500PF29070MSC6_N1361800.004516.8
TkA04G058500PF17177PPR_long1492310.07613.1
TkA04G058500PF00515TPR_11491570.08413.4
TkA04G058500PF13041PPR_21992312.5e-1763.4
TkA04G058500PF01535PPR2042301e-2073.2
TkA04G058500PF12854PPR_12042262.5e-0524.6
TkA04G058500PF29070MSC6_N2062750.004516.8
TkA04G058500PF13374TPR_102082250.1113.3
TkA04G058500PF00515TPR_12092240.08413.4
TkA04G058500PF13041PPR_22292772.5e-1763.4
TkA04G058500PF12854PPR_12302562.5e-0524.6
TkA04G058500PF01535PPR2322591e-2073.2
TkA04G058500PF00515TPR_12342590.08413.4
TkA04G058500PF13374TPR_102412580.1113.3

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
Q9LTF4Arabidopsis thalianasp|Q9LTF4|PP429_ARATH Putative pentatricopeptide repeat-containing protein At5g5263067.100%Swiss-ProtMedium
Q9LZ19Arabidopsis thalianasp|Q9LZ19|PP364_ARATH Pentatricopeptide repeat-containing protein At5g04780, mitochondrial38.400%Swiss-ProtMedium
P93005Arabidopsis thalianasp|P93005|PP181_ARATH Pentatricopeptide repeat-containing protein At2g3368035.600%Swiss-ProtMedium
Q0WNP3Arabidopsis thalianasp|Q0WNP3|PP319_ARATH Pentatricopeptide repeat-containing protein At4g18520, chloroplastic34.300%Swiss-ProtMedium
Q3E6Q1Arabidopsis thalianasp|Q3E6Q1|PPR32_ARATH Pentatricopeptide repeat-containing protein At1g11290, chloroplastic32.900%Swiss-ProtMedium

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