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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

TkA04G408030
Reference: TK1151 Chr: Chr04 Coordinates: 102590485-102591633 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

852 bp · TkA04G408030|TK1151|cDNA

ATGGTAATCGAAGGTTTTGAGCCAAATGATGTTACTGTCCTTTCGGTTCTTAGAGCTTGTGCTGATACAGGAGCTTTGAATGTTGGCATGAAATTAAACGAGTTTTTAAATCGTAAAGGTGGTGTTCTAAAAAAAAACATTGTTACTGCTCTTATCGACATGTATTCAAAATGTGGATCCATAGATAATGCAACAAGAATCTTCAATGAAGCCCAAAATAAAGACGTTTATGTTTGGACAGCAATGATATCAGGACTCGC...

CDS

Download CDS FASTA

852 bp · TkA04G408030|TK1151|CDS

ATGGTAATCGAAGGTTTTGAGCCAAATGATGTTACTGTCCTTTCGGTTCTTAGAGCTTGTGCTGATACAGGAGCTTTGAATGTTGGCATGAAATTAAACGAGTTTTTAAATCGTAAAGGTGGTGTTCTAAAAAAAAACATTGTTACTGCTCTTATCGACATGTATTCAAAATGTGGATCCATAGATAATGCAACAAGAATCTTCAATGAAGCCCAAAATAAAGACGTTTATGTTTGGACAGCAATGATATCAGGACTCGC...

Protein

Download Protein FASTA

283 aa · TkA04G408030|TK1151|PROTEIN

MVIEGFEPNDVTVLSVLRACADTGALNVGMKLNEFLNRKGGVLKKNIVTALIDMYSKCGSIDNATRIFNEAQNKDVYVWTAMISGLASHGLCQEALDLFEKMHNLETKPDEKTMTAVLSACNVYASKKNWKKKAKVRNIMNQKGLVKPSGHSRIEIDSKIYQFTAGSTCNIEAESIYKKLNEIEVRLRNNGYDPKISDVLLDVDDEEKGLQLLHHSEKLAVCFGLMKMEAGSVIRVVKNLRSCEDCHDFMKRVSRIYERE...

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 IDTkA04G408030
TK1151 IDTkA04G408030
OH-1004 IDLXL04_038232
Relationship / confidenceMulti Source To Oh1004 / Complex relationship
Protein identity (%)73.300
Protein coverage (%)TK1151 100.000 / OH-1004 67.018
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 IDTkA04G408030
LocationChr04:102590485-102591633 (+)
DescriptionSimilar to PCMP-H28: Pentatricopeptide repeat-containing protein At4g21065
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
At5g66520 Pentatricopeptide repeat-containing protein At5g66520. No verified direct reference in this release
At2g03880 Pentatricopeptide repeat-containing protein At2g03880, mitochondrial. No verified direct reference in this release
At4g21065 Pentatricopeptide repeat-containing protein At4g21065. No verified direct reference in this release
At1g31920 Pentatricopeptide repeat-containing protein At1g31920. 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_038232 · 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:0016554 cytidine to uridine editing Biological Process
GO:0031425 chloroplast RNA processing Biological Process
GO:1900865 chloroplast RNA modification 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:AT1G31920
ath:AT2G02980
ath:AT3G47530
ath:AT4G21065
ath:AT5G66520
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.

Mitochondrion0.624
Rank 1 · TkA04G408030 · TK1151
Plastid0.152
Rank 2 · TkA04G408030 · TK1151
Nucleus0.119
Rank 3 · TkA04G408030 · TK1151
Cytoplasm0.051
Rank 4 · TkA04G408030 · TK1151
Cell membrane0.010
Rank 5 · TkA04G408030 · 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
PF13812PPR_31-27 aa
PF12854PPR_15-12 aa
PF29070MSC6_N6-120 aa
PF01535PPR11-25 aa
PF14432DYW_deaminase12-25 aa
PF23276TPR_2412-75 aa
PF17908APAF1_C30-54 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA04G408030PF13041PPR_21213e-1763.2
TkA04G408030PF13812PPR_31270.0002122.0
TkA04G408030PF12854PPR_15128.2e-0935.8
TkA04G408030PF29070MSC6_N61207.5e-0626.0
TkA04G408030PF01535PPR11251.4e-1350.8
TkA04G408030PF14432DYW_deaminase12258.3e-37125.6
TkA04G408030PF23276TPR_2412752.1e-0628.4
TkA04G408030PF17908APAF1_C30540.05314.2
TkA04G408030PF00637Clathrin451270.1113.0
TkA04G408030PF13812PPR_346730.0002122.0
TkA04G408030PF13041PPR_249753e-1763.2
TkA04G408030PF01535PPR49741.4e-1350.8
TkA04G408030PF12854PPR_149708.2e-0935.8
TkA04G408030PF00418Tubulin-binding56650.1612.6
TkA04G408030PF22330Rib_mS39_PPR62890.2212.0
TkA04G408030PF17908APAF1_C681400.05314.2

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, chloroplastic33.900%Swiss-ProtMedium
Q9FJY7Arabidopsis thalianasp|Q9FJY7|PP449_ARATH Pentatricopeptide repeat-containing protein At5g6652032.400%Swiss-ProtMedium
Q9SI53Arabidopsis thalianasp|Q9SI53|PP147_ARATH Pentatricopeptide repeat-containing protein At2g03880, mitochondrial33.100%Swiss-ProtMedium
A8MQA3Arabidopsis thalianasp|A8MQA3|PP330_ARATH Pentatricopeptide repeat-containing protein At4g2106530.500%Swiss-ProtMedium
Q9C6T2Arabidopsis thalianasp|Q9C6T2|PPR68_ARATH Pentatricopeptide repeat-containing protein At1g3192031.600%Swiss-ProtMedium

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