RubberDandelionOmics Rubber Dandelion Multi-omics Website
More
Transcriptome Expression Annotation Rubber Pathway TF Prediction Targets Protein Network Resequencing Tools Downloads
ZH EN

How to use this page

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

TkA01G057750
Reference: TK1151 Chr: Chr01 Coordinates: 14890608-14892710 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1737 bp · TkA01G057750|TK1151|cDNA

ATGAGACGCCTTTCTGCTCTTGCTTCTAGGGTTGAACAAATCCCAAATCAAATTACACACAAGTCACTAAATCAACCAAAGCTCGAATCCAGTTCTTCATCCCACCACCAAAACCCTCCAGTCACCACCACTAATTTCACCGCAAGAGGTAAGTTTTCTTCACTTAACTCTCAATCGAAAACCCCCACTCATAAACCCATTGATCATCACTACATTTCCCAGATTCTTTCAAGAAAAGACTGGTACTTGCTTCTAAACCA...

CDS

Download CDS FASTA

1737 bp · TkA01G057750|TK1151|CDS

ATGAGACGCCTTTCTGCTCTTGCTTCTAGGGTTGAACAAATCCCAAATCAAATTACACACAAGTCACTAAATCAACCAAAGCTCGAATCCAGTTCTTCATCCCACCACCAAAACCCTCCAGTCACCACCACTAATTTCACCGCAAGAGGTAAGTTTTCTTCACTTAACTCTCAATCGAAAACCCCCACTCATAAACCCATTGATCATCACTACATTTCCCAGATTCTTTCAAGAAAAGACTGGTACTTGCTTCTAAACCA...

Protein

Download Protein FASTA

578 aa · TkA01G057750|TK1151|PROTEIN

MRRLSALASRVEQIPNQITHKSLNQPKLESSSSSHHQNPPVTTTNFTARGKFSSLNSQSKTPTHKPIDHHYISQILSRKDWYLLLNHDLKSKKLSLNPRIIVSVLQNQENPLHNLIFYLWVSNINPSFAKNQSIRGVLANTLYRKGPVLLSKELINLVRTSNCSITEDSLCILINSWGRLGLAKYCSQVFDQISYLGLTPSTRLYNAVIDALVKSNALDLAYLKFHQMKADRCDPDRFTYNFLIHGVCKIGVIDEASRLM...

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 IDTkA01G057750
TK1151 IDTkA01G057750
OH-1004 IDLXL04_005382
Relationship / confidenceRbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)99.100
Protein coverage (%)TK1151 74.567 / OH-1004 48.318
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 IDTkA01G057750
LocationChr01:14890608-14892710 (+)
DescriptionSimilar to PPR40: Putative pentatricopeptide repeat-containing protein At3g16890, mitochondrial
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At3g16890 Required for the ubiquinol-cytochrome c oxidoreductase activity of mitochondrial complex III.
Arabidopsis PPR40 connects abiotic stress responses to mitochondrial electron transport.2008 · DOI: 10.1104/pp.107.111260

Rice

No hit for this species in the current source table.

Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_005382 · 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:0006979 response to oxidative stress Biological Process
GO:0009651 response to salt stress Biological Process
GO:0009737 response to abscisic acid Biological Process
GO:0042775 mitochondrial ATP synthesis coupled electron transport Biological Process
GO:0005737 cytoplasm Cellular Component
GO:0005739 mitochondrion Cellular Component
GO:0009507 chloroplast Cellular Component
GO:0003729 mRNA binding Molecular Function
KEGG gene cross-reference
ath:AT3G16890
ath:AT5G39710
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.

Mitochondrion0.765
Rank 1 · TkA01G057750 · TK1151
Plastid0.115
Rank 2 · TkA01G057750 · TK1151
Nucleus0.056
Rank 3 · TkA01G057750 · TK1151
Cytoplasm0.030
Rank 4 · TkA01G057750 · TK1151
Cell membrane0.009
Rank 5 · TkA01G057750 · 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.

PF19189Mtf229-70 aa
PF13041PPR_2158-175 aa
PF29070MSC6_N161-296 aa
PF12854PPR_1171-191 aa
PF01535PPR171-195 aa
PF23276TPR_24174-265 aa
PF13812PPR_3189-245 aa
PF12854PPR_1197-229 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA01G057750PF19189Mtf229700.1712.3
TkA01G057750PF13041PPR_21581752.1e-74246.1
TkA01G057750PF29070MSC6_N1612961.8e-2074.1
TkA01G057750PF12854PPR_11711914.2e-65215.9
TkA01G057750PF01535PPR1711954.1e-49162.2
TkA01G057750PF23276TPR_241742653.1e-2486.1
TkA01G057750PF13812PPR_31892451.1e-33115.8
TkA01G057750PF12854PPR_11972294.2e-65215.9
TkA01G057750PF08579RPM21972160.05114.7
TkA01G057750PF17177PPR_long1983354e-2176.1
TkA01G057750PF13041PPR_22002492.1e-74246.1
TkA01G057750PF01535PPR2052334.1e-49162.2
TkA01G057750PF29978ATP18_TPR2092460.0002721.6
TkA01G057750PF06239ECSIT_N2132320.008316.1
TkA01G057750PF12854PPR_12322644.2e-65215.9
TkA01G057750PF13041PPR_22382842.1e-74246.1

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
Q9LSQ2Arabidopsis thalianasp|Q9LSQ2|PP239_ARATH Putative pentatricopeptide repeat-containing protein At3g16890, mitochondrial59.800%Swiss-ProtMedium

JBrowse

View in Genome Browser