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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

TkA05G416440
Reference: TK1151 Chr: Chr05 Coordinates: 103635470-103636384 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

915 bp · TkA05G416440|TK1151|cDNA

ATGATAGAAGCCCGCGGGTTTTTGAAATCAATCGCCCGCTTAATAGACGACTGCAAAAACATCAAACACCTGAAACAAATCCATTCCCAAATCATAACATCACCATACTTCTCCAAATCCGATCACCTCTTACTCATTTCTCGCGTCATCTTCTTCTGCACTGTTACATCTCCCGGTTCTTTCAATTACGCTGCTCGTGTTTTTCAAGCAACAGAAAATCCCAATCTCTTTATCTACAACGCCATGATCAGATCATACTC...

CDS

Download CDS FASTA

915 bp · TkA05G416440|TK1151|CDS

ATGATAGAAGCCCGCGGGTTTTTGAAATCAATCGCCCGCTTAATAGACGACTGCAAAAACATCAAACACCTGAAACAAATCCATTCCCAAATCATAACATCACCATACTTCTCCAAATCCGATCACCTCTTACTCATTTCTCGCGTCATCTTCTTCTGCACTGTTACATCTCCCGGTTCTTTCAATTACGCTGCTCGTGTTTTTCAAGCAACAGAAAATCCCAATCTCTTTATCTACAACGCCATGATCAGATCATACTC...

Protein

Download Protein FASTA

305 aa · TkA05G416440|TK1151|PROTEIN

MIEARGFLKSIARLIDDCKNIKHLKQIHSQIITSPYFSKSDHLLLISRVIFFCTVTSPGSFNYAARVFQATENPNLFIYNAMIRSYSNKNETPHSSMVLYKQMLLDSIVPDCITLPFLMKECTTRPDFISGQTIHAHSIKFGFADDVYVGNSMINFYSACGVLTRARKVFDEMSRRDIVSWNSIITGCLRHMELDSGVELFTKMDKKNIITWNTIIIGLVHGNRPKPAIDFFNKMVASRNNNTIHPDKITLASVISACAS...

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 IDTkA05G416440
TK1151 IDTkA05G416440
OH-1004 IDLXL04_021698
Relationship / confidenceSequence Supported Annotation Or Model Conflict / Review
Protein identity (%)96.400
Protein coverage (%)TK1151 100.000 / OH-1004 57.331
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 IDTkA05G416440
LocationChr05:103635470-103636384 (-)
DescriptionSimilar to PCMP-H61: Pentatricopeptide repeat-containing protein At5g66520
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At1g59720 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
At3g22690 Pentatricopeptide repeat-containing protein At3g22690. No verified direct reference in this release
At5g06540 Pentatricopeptide repeat-containing protein At5g06540. No verified direct reference in this release
At3g05240 Putative pentatricopeptide repeat-containing protein At3g05240. No verified direct reference in this release
At2g36730 Pentatricopeptide repeat-containing protein At2g36730. 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_021698 · 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: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:AT2G42920
ath:AT3G62890
ath:AT5G06540
ath:AT5G48910
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.

Mitochondrion0.681
Rank 1 · TkA05G416440 · TK1151
Plastid0.144
Rank 2 · TkA05G416440 · TK1151
Nucleus0.040
Rank 3 · TkA05G416440 · TK1151
Cytoplasm0.034
Rank 4 · TkA05G416440 · TK1151
Cell membrane0.005
Rank 5 · TkA05G416440 · 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.

PF22330Rib_mS39_PPR62-85 aa
PF12854PPR_173-86 aa
PF13041PPR_274-122 aa
PF13812PPR_374-121 aa
PF29070MSC6_N74-88 aa
PF01535PPR78-91 aa
PF12854PPR_1108-114 aa
PF13812PPR_3143-174 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA05G416440PF22330Rib_mS39_PPR62850.2212.0
TkA05G416440PF12854PPR_173862.5e-1556.6
TkA05G416440PF13041PPR_2741222.9e-2795.2
TkA05G416440PF13812PPR_3741216.7e-0730.0
TkA05G416440PF29070MSC6_N74880.08412.7
TkA05G416440PF01535PPR78911.6e-2588.2
TkA05G416440PF12854PPR_11081142.5e-1556.6
TkA05G416440PF13812PPR_31431746.7e-0730.0
TkA05G416440PF13041PPR_21461782.9e-2795.2
TkA05G416440PF01535PPR1511781.6e-2588.2
TkA05G416440PF12854PPR_11511742.5e-1556.6
TkA05G416440PF29070MSC6_N1511850.08412.7
TkA05G416440PF22330Rib_mS39_PPR1661920.2212.0
TkA05G416440PF13812PPR_31692166.7e-0730.0
TkA05G416440PF13041PPR_21762092.9e-2795.2
TkA05G416440PF12854PPR_11772042.5e-1556.6

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
Q0WQW5Arabidopsis thalianasp|Q0WQW5|PPR85_ARATH Pentatricopeptide repeat-containing protein At1g59720, chloroplastic/mitochondrial31.800%Swiss-ProtMedium
Q9LUJ2Arabidopsis thalianasp|Q9LUJ2|PP249_ARATH Pentatricopeptide repeat-containing protein At3g2269030.200%Swiss-ProtMedium
Q9FG16Arabidopsis thalianasp|Q9FG16|PP367_ARATH Pentatricopeptide repeat-containing protein At5g0654039.100%Swiss-ProtMedium
Q9MA95Arabidopsis thalianasp|Q9MA95|PP214_ARATH Putative pentatricopeptide repeat-containing protein At3g0524025.000%Swiss-ProtLow
Q9ZQA1Arabidopsis thalianasp|Q9ZQA1|PP188_ARATH Pentatricopeptide repeat-containing protein At2g3673030.200%Swiss-ProtMedium

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