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

TkA06G049260
Reference: TK1151 Chr: Chr06 Coordinates: 13327001-13327798 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

798 bp · TkA06G049260|TK1151|cDNA

ATGAATTGTGGGATGTTCAGTTATGCACGCAAGCTTTTTGATGAAATGCCTGAGAAAAATCTGGTCTCTTGGACTCTGATTATCTCCGGAGCAAATAAAATCACTAACTATGACGTGGCTCTAGAGTTGTTCATTAACATGAAAAGAACCGAGTCTTTCATGCCTAATGAGTTTGCTTTAGGTAGCATCATGAAAGCGGGTATTAATACGGGAGCTCTAGAGTTTTGTCTATGTATCCATTGTTTTTCTATCAAAATCGG...

CDS

Download CDS FASTA

798 bp · TkA06G049260|TK1151|CDS

ATGAATTGTGGGATGTTCAGTTATGCACGCAAGCTTTTTGATGAAATGCCTGAGAAAAATCTGGTCTCTTGGACTCTGATTATCTCCGGAGCAAATAAAATCACTAACTATGACGTGGCTCTAGAGTTGTTCATTAACATGAAAAGAACCGAGTCTTTCATGCCTAATGAGTTTGCTTTAGGTAGCATCATGAAAGCGGGTATTAATACGGGAGCTCTAGAGTTTTGTCTATGTATCCATTGTTTTTCTATCAAAATCGG...

Protein

Download Protein FASTA

265 aa · TkA06G049260|TK1151|PROTEIN

MNCGMFSYARKLFDEMPEKNLVSWTLIISGANKITNYDVALELFINMKRTESFMPNEFALGSIMKAGINTGALEFCLCIHCFSIKIGLEKNNFVGNSILHMYAKYGEIKSAESLFESLNVGSDFACWNAMVGGYSQCGYGFEAKKTVSLMHLKGVIIDELTFIHALNASSVTCDMEFGSQIHGQIIRNGFEQMVTLMNSLIDMYFKTASKDYSWKLFEKMEDKDISTWNTILAFSCIQQVVSLFNDLMITGGLHLSITFS...

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 IDTkA06G049260
TK1151 IDTkA06G049260
OH-1004 IDLXL04_025611
Relationship / confidenceRbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)90.600
Protein coverage (%)TK1151 100.000 / OH-1004 33.974
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 IDTkA06G049260
LocationChr06:13327001-13327798 (+)
DescriptionSimilar to PCMP-E88: Pentatricopeptide repeat-containing protein At3g09040, mitochondrial
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At3g13770 Putative pentatricopeptide repeat-containing protein At3g13770, mitochondrial. No verified direct reference in this release
At3g22690 Pentatricopeptide repeat-containing protein At3g22690. No verified direct reference in this release
At3g15130 Putative pentatricopeptide repeat-containing protein At3g15130. No verified direct reference in this release
At5g50390 Pentatricopeptide repeat-containing protein At5g50390, chloroplastic. No verified direct reference in this release
At2g03880 Pentatricopeptide repeat-containing protein At2g03880, mitochondrial. 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_025611 · 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:0005739 mitochondrion Cellular Component
GO:0003723 RNA binding Molecular Function
KEGG gene cross-reference
ath:AT3G09040
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.

Mitochondrion0.696
Rank 1 · TkA06G049260 · TK1151
Plastid0.146
Rank 2 · TkA06G049260 · TK1151
Nucleus0.037
Rank 3 · TkA06G049260 · TK1151
Cytoplasm0.034
Rank 4 · TkA06G049260 · TK1151
Cell membrane0.006
Rank 5 · TkA06G049260 · 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_22-20 aa
PF01535PPR3-20 aa
PF12854PPR_14-16 aa
PF13812PPR_319-50 aa
PF13041PPR_220-65 aa
PF12854PPR_120-48 aa
PF01535PPR22-49 aa
PF13041PPR_295-117 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA06G049260PF13041PPR_22204.4e-1762.6
TkA06G049260PF01535PPR3207e-1658.0
TkA06G049260PF12854PPR_14161.1e-0525.7
TkA06G049260PF13812PPR_319505.5e-0523.9
TkA06G049260PF13041PPR_220654.4e-1762.6
TkA06G049260PF12854PPR_120481.1e-0525.7
TkA06G049260PF01535PPR22497e-1658.0
TkA06G049260PF13041PPR_2951174.4e-1762.6
TkA06G049260PF01535PPR961177e-1658.0
TkA06G049260PF12854PPR_1961161.1e-0525.7
TkA06G049260PF13812PPR_3961165.5e-0523.9
TkA06G049260PF12854PPR_11231481.1e-0525.7
TkA06G049260PF13041PPR_21251624.4e-1762.6
TkA06G049260PF01535PPR1261557e-1658.0
TkA06G049260PF13812PPR_31502045.5e-0523.9
TkA06G049260PF13812PPR_31872265.5e-0523.9

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
Q9LIC3Arabidopsis thalianasp|Q9LIC3|PP227_ARATH Putative pentatricopeptide repeat-containing protein At3g13770, mitochondrial35.200%Swiss-ProtMedium
Q9LUJ2Arabidopsis thalianasp|Q9LUJ2|PP249_ARATH Pentatricopeptide repeat-containing protein At3g2269033.800%Swiss-ProtMedium
P0C898Arabidopsis thalianasp|P0C898|PP232_ARATH Putative pentatricopeptide repeat-containing protein At3g1513037.400%Swiss-ProtMedium
Q9FK33Arabidopsis thalianasp|Q9FK33|PP427_ARATH Pentatricopeptide repeat-containing protein At5g50390, chloroplastic33.900%Swiss-ProtMedium
Q9SI53Arabidopsis thalianasp|Q9SI53|PP147_ARATH Pentatricopeptide repeat-containing protein At2g03880, mitochondrial31.300%Swiss-ProtMedium

JBrowse

View in Genome Browser