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

TkA05G291160
Reference: TK1151 Chr: Chr05 Coordinates: 71901942-71908168 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1846 bp · TkA05G291160|TK1151|cDNA

TTGCTATCCTAACATGGTTAGTTAACTTATACAATACGGATAACAGCAATCTTTTAGTCATTTGTAGAATCAGTATTGTTTAGCATGTTAATCGCCGCTTGAATATGTGTTTGTATTGCATGATTCCATCCAGGACACCTTTGGTTTAGAAGGAAATTGCATACAAGGTGTTTGATTTAATGCATTGAACTCCTTACACCCTCAGCGCATATTGCATACAAGGTGTTTGATGAAATGCTTGGAAGCCTAAACAGTTACTG...

CDS

Download CDS FASTA

1467 bp · TkA05G291160|TK1151|CDS

ATGCCAGAAACAACAGTGAAACAAATCTTCAATCTTCGATCTTATGCCTATTATCGCCCAATTCCACTCCAATTCACCACAAATGCACTCGCCAACCAAGAAAAATTTAATCTTGTTATTTCAAAAGTTCAATCCGGAACTGGAAGGACCGATAATGAAATATTCAAGTCTCTAATTCACGATCAATCTTGTACCACCATACCCATCTCTGACAACCTTATATCCCACCTATTACACCGATTCAAAGACGACTGGAAGTC...

Protein

Download Protein FASTA

488 aa · TkA05G291160|TK1151|PROTEIN

MPETTVKQIFNLRSYAYYRPIPLQFTTNALANQEKFNLVISKVQSGTGRTDNEIFKSLIHDQSCTTIPISDNLISHLLHRFKDDWKSSLAIFKWAESQKGHTPLPNSYAIILDTLGKSKQIEKMMSLLTQTPHHDVTLTSISKVMRRLCGAGKWQKAVKIFDDLNTFGLQKNTESMNLLLDTLCKENKVEQARKIFLELKSCIPPTPHTFNIFIHGWCKVNRVEEAHWTIQEMKGYGFSPSVITYSTIIKSYCQNHNFDN...

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 IDTkA05G291160
TK1151 IDTkA05G291160
OH-1004 IDLXL04_020685
Relationship / confidenceRbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)99.800
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 IDTkA05G291160
LocationChr05:71901942-71908168 (-)
DescriptionSimilar to At3g04130: Pentatricopeptide repeat-containing protein At3g04130, mitochondrial
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At3g04130 Pentatricopeptide repeat-containing protein At3g04130, mitochondrial. No verified direct reference in this release
At3g22670 Pentatricopeptide repeat-containing protein At3g22670, 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_020685 · 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:0008380 RNA splicing Biological Process
GO:0005737 cytoplasm Cellular Component
GO:0005739 mitochondrion Cellular Component
GO:0009507 chloroplast Cellular Component
GO:0003723 RNA binding Molecular Function
GO:0003729 mRNA binding Molecular Function
KEGG gene cross-reference
ath:AT1G74900
ath:AT3G04130
ath:AT3G22670
ath:AT5G43820
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.

Mitochondrion0.877
Rank 1 · TkA05G291160 · TK1151
Plastid0.053
Rank 2 · TkA05G291160 · TK1151
Nucleus0.049
Rank 3 · TkA05G291160 · TK1151
Cytoplasm0.031
Rank 4 · TkA05G291160 · TK1151
Cell membrane0.011
Rank 5 · TkA05G291160 · 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.

PF29070MSC6_N32-127 aa
PF28737VPS18_solenoid_2nd56-129 aa
PF17107SesA70-130 aa
PF13041PPR_2107-129 aa
PF01535PPR107-128 aa
PF23276TPR_24107-139 aa
PF00637Clathrin112-181 aa
PF26719TPR_Atp25_C117-196 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA05G291160PF29070MSC6_N321272.6e-1970.3
TkA05G291160PF28737VPS18_solenoid_2nd561290.09813.2
TkA05G291160PF17107SesA701300.002618.6
TkA05G291160PF13041PPR_21071292.5e-57191.5
TkA05G291160PF01535PPR1071289.7e-45148.5
TkA05G291160PF23276TPR_241071392.7e-1453.9
TkA05G291160PF00637Clathrin1121810.02714.9
TkA05G291160PF26719TPR_Atp25_C1171960.01515.3
TkA05G291160PF08672ANAPC21191531.110.5
TkA05G291160PF22330Rib_mS39_PPR1232020.001818.8
TkA05G291160PF10037MRP-S271251980.0003320.4
TkA05G291160PF29070MSC6_N1402662.6e-1970.3
TkA05G291160PF13041PPR_21441702.5e-57191.5
TkA05G291160PF01535PPR1441689.7e-45148.5
TkA05G291160PF23276TPR_241472272.7e-1453.9
TkA05G291160PF12854PPR_11481631.3e-51172.7

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
Q9M8W9Arabidopsis thalianasp|Q9M8W9|PP211_ARATH Pentatricopeptide repeat-containing protein At3g04130, mitochondrial53.700%Swiss-ProtHigh
Q9LUJ4Arabidopsis thalianasp|Q9LUJ4|PP248_ARATH Pentatricopeptide repeat-containing protein At3g22670, mitochondrial46.700%Swiss-ProtMedium

JBrowse

View in Genome Browser