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

TkA06G476040
Reference: TK1151 Chr: Chr06 Coordinates: 117960165-117965246 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

3550 bp · TkA06G476040|TK1151|cDNA

GCTTTAGTCATTTTCCCTATCCTCACACATGGTGTCCCTATAATCCTATAGCTTCGTTTCTTCTCCATCTTATCTCCCACCCCCTGATCACTGGTACTCTGTTTTTACAGACTAACACCGCATTTGAAACTCTAACGCCACCATCGGACCACCTCGCCTTCATCCTTTTTCATCTCTCGGTCTATATAACCCAATTTCACAATCTTGAGGTAAAATGGAACCACTTTAAACATCCATGGAAGCTTTAAAATCTTCATTCC...

CDS

Download CDS FASTA

3213 bp · TkA06G476040|TK1151|CDS

ATGGAAGCTTTAAAATCTTCATTCCTAAACCCAACTCCATTGAACTCTCACTCTTCAAAATACCCCCTTCACCTCAAATCCTCATCTATCATCATCTCCTGTTCAGGGAAAGTCTCCCCTGACCCATGGTCTCTGAGCGATGGAAACAACAACAACAAACCGAAACCAAAATCAAAAAACCGAAAAAACCCTCTTTCAGACGACAATGCGCGCCGCATCATCAAAGGCAAAGCGCGTTACTTAAGCGCGTTGAGGCGCAA...

Protein

Download Protein FASTA

1070 aa · TkA06G476040|TK1151|PROTEIN

MEALKSSFLNPTPLNSHSSKYPLHLKSSSIIISCSGKVSPDPWSLSDGNNNNKPKPKSKNRKNPLSDDNARRIIKGKARYLSALRRNQGSRALTPAWIKRSPEQMIQYLEDDRNGHLYGRHVVAAIQRVRGLSGLPDGSYDMRRVMASFVTKLTFREMCTVLKEQRNWRQVRDFLAWMKLQLTYRPSVIVYTLVLRTYGQAGKIKLAEETFLEMLEAGCEPDEVACGTMLCAYAKWGRHNSMLSFHSALQERGITVSVSV...

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 IDTkA06G476040
TK1151 IDTkA06G476040
OH-1004 IDLXL04_022567
Relationship / confidenceRbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)84.500
Protein coverage (%)TK1151 100.000 / OH-1004 100.000
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 IDTkA06G476040
LocationChr06:117960165-117965246 (+)
DescriptionSimilar to EMB976: Pentatricopeptide repeat-containing protein At5g27270
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At5g27270 Pentatricopeptide repeat-containing protein At5g27270. 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_022567 · 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:0000373 Group II intron splicing Biological Process
GO:0006397 mRNA processing Biological Process
GO:0006412 translation Biological Process
GO:0010239 chloroplast mRNA processing Biological Process
GO:0032544 plastid translation Biological Process
GO:0043489 RNA stabilization Biological Process
GO:0005737 cytoplasm Cellular Component
GO:0005739 mitochondrion Cellular Component
GO:0009507 chloroplast Cellular Component
GO:0009570 chloroplast stroma Cellular Component
GO:0003729 mRNA binding Molecular Function
KEGG gene cross-reference
ath:AT4G31850
ath:AT5G27270
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.

Mitochondrion0.555
Rank 1 · TkA06G476040 · TK1151
Plastid0.290
Rank 2 · TkA06G476040 · TK1151
Nucleus0.069
Rank 3 · TkA06G476040 · TK1151
Cytoplasm0.026
Rank 4 · TkA06G476040 · TK1151
Cell membrane0.010
Rank 5 · TkA06G476040 · 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.

PF09748Med10102-128 aa
PF13211DUF4019115-171 aa
PF13429TPR_15156-217 aa
PF26719TPR_Atp25_C165-202 aa
PF17177PPR_long183-251 aa
PF13812PPR_3185-222 aa
PF12854PPR_1185-214 aa
PF13041PPR_2186-235 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA06G476040PF09748Med101021280.2611.9
TkA06G476040PF13211DUF40191151710.1213.6
TkA06G476040PF13429TPR_151562170.1911.9
TkA06G476040PF26719TPR_Atp25_C1652029.3e-0522.5
TkA06G476040PF17177PPR_long1832515.6e-2795.2
TkA06G476040PF13812PPR_31852226.9e-47158.1
TkA06G476040PF12854PPR_11852141.2e-38131.2
TkA06G476040PF13041PPR_21862351.3e-89294.9
TkA06G476040PF01535PPR1902192.9e-83269.2
TkA06G476040PF13424TPR_121902163.5e-0524.6
TkA06G476040PF13181TPR_81912150.00318.3
TkA06G476040PF23276TPR_241923222.2e-32112.5
TkA06G476040PF10602RPN71932390.004117.6
TkA06G476040PF13428TPR_141942181.9e-1144.2
TkA06G476040PF00515TPR_11982152e-0524.9
TkA06G476040PF12854PPR_12182351.2e-38131.2

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
O04647Arabidopsis thalianasp|O04647|PP399_ARATH Pentatricopeptide repeat-containing protein At5g2727053.500%Swiss-ProtMedium

JBrowse

View in Genome Browser