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

TkA05G061670
Reference: TK1151 Chr: Chr05 Coordinates: 16412023-16413765 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1455 bp · TkA05G061670|TK1151|cDNA

ATGCAACAGCACCAAATTTGGGCCGATTCCGTCACATATTCCGAACTCATTAAGTGTTGTCTCGCTCGTGGTGCCATCCGAGAAGCCAAAATCGTCCACAAACACATTTTCTCTAATGGATACAACCCCAAAACTTTCTTGATTAATACTCTCATGAACATGTACGTAAAGTTTAACTTATTGGACTACGCACAGGCACTGTTCGATCAAATGCCTGAGAGAAACGTAGTATCATGGACCACCATGATATCTGCTTTCTC...

CDS

Download CDS FASTA

1455 bp · TkA05G061670|TK1151|CDS

ATGCAACAGCACCAAATTTGGGCCGATTCCGTCACATATTCCGAACTCATTAAGTGTTGTCTCGCTCGTGGTGCCATCCGAGAAGCCAAAATCGTCCACAAACACATTTTCTCTAATGGATACAACCCCAAAACTTTCTTGATTAATACTCTCATGAACATGTACGTAAAGTTTAACTTATTGGACTACGCACAGGCACTGTTCGATCAAATGCCTGAGAGAAACGTAGTATCATGGACCACCATGATATCTGCTTTCTC...

Protein

Download Protein FASTA

484 aa · TkA05G061670|TK1151|PROTEIN

MQQHQIWADSVTYSELIKCCLARGAIREAKIVHKHIFSNGYNPKTFLINTLMNMYVKFNLLDYAQALFDQMPERNVVSWTTMISAFSTAKLDDKAMEFLILMQMKKSGFMADQATLTSVLRACTGMALLELGRQVHVHVLKYNNQDLILGNALLDMYCKCGSMEDARFEFTKMVEKDVISWSTMINGLAQNGFSHEALNMFQSMEASGTRPNYITIVGVLFACSHAGFLEKGQSFFESMEKNYGIKPGREHYGCMVDLLG...

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 IDTkA05G061670
TK1151 IDTkA05G061670
OH-1004 IDLXL04_019551
Relationship / confidenceMulti Source To Oh1004 / Complex relationship
Protein identity (%)82.400
Protein coverage (%)TK1151 100.000 / OH-1004 89.922
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 IDTkA05G061670
LocationChr05:16412023-16413765 (-)
DescriptionSimilar to PCMP-H44: Pentatricopeptide repeat-containing protein At2g03880, mitochondrial
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At2g03880 Pentatricopeptide repeat-containing protein At2g03880, mitochondrial. No verified direct reference in this release
At5g16860 Pentatricopeptide repeat-containing protein At5g16860. No verified direct reference in this release
At4g33170 Pentatricopeptide repeat-containing protein At4g33170. No verified direct reference in this release
At3g46790 Required for the intergenic processing between chloroplast rsp7 and ndhB transcripts. No verified direct reference in this release
At3g26782 Pentatricopeptide repeat-containing protein At3g26782, 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_019551 · 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:0080156 mitochondrial mRNA modification Biological Process
GO:0005739 mitochondrion 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:AT2G03880
ath:AT3G24000
ath:AT4G13650
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.

Mitochondrion0.674
Rank 1 · TkA05G061670 · TK1151
Plastid0.198
Rank 2 · TkA05G061670 · TK1151
Nucleus0.058
Rank 3 · TkA05G061670 · TK1151
Cytoplasm0.034
Rank 4 · TkA05G061670 · TK1151
Cell membrane0.007
Rank 5 · TkA05G061670 · 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.

PF13812PPR_31-57 aa
PF23276TPR_243-87 aa
PF17177PPR_long4-71 aa
PF13041PPR_29-43 aa
PF12854PPR_19-19 aa
PF01535PPR11-40 aa
PF14559TPR_1915-30 aa
PF19766DUF625320-33 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA05G061670PF13812PPR_31572.1e-1247.6
TkA05G061670PF23276TPR_243871.1e-0732.5
TkA05G061670PF17177PPR_long4715.9e-0523.3
TkA05G061670PF13041PPR_29434.1e-34117.2
TkA05G061670PF12854PPR_19191.1e-2589.7
TkA05G061670PF01535PPR11401.2e-33113.7
TkA05G061670PF14559TPR_1915305.4e-0627.4
TkA05G061670PF19766DUF625320330.05214.2
TkA05G061670PF13041PPR_243764.1e-34117.2
TkA05G061670PF29070MSC6_N481226.3e-0832.8
TkA05G061670PF23615Chromo_MIT148860.03415.3
TkA05G061670PF01535PPR49761.2e-33113.7
TkA05G061670PF12854PPR_149711.1e-2589.7
TkA05G061670PF14559TPR_1952755.4e-0627.4
TkA05G061670PF13041PPR_2741234.1e-34117.2
TkA05G061670PF12854PPR_1741021.1e-2589.7

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
Q9SI53Arabidopsis thalianasp|Q9SI53|PP147_ARATH Pentatricopeptide repeat-containing protein At2g03880, mitochondrial55.300%Swiss-ProtHigh
Q9LFL5Arabidopsis thalianasp|Q9LFL5|PP390_ARATH Pentatricopeptide repeat-containing protein At5g1686040.300%Swiss-ProtMedium
Q9SMZ2Arabidopsis thalianasp|Q9SMZ2|PP347_ARATH Pentatricopeptide repeat-containing protein At4g3317041.200%Swiss-ProtMedium
Q9STF3Arabidopsis thalianasp|Q9STF3|PP265_ARATH Pentatricopeptide repeat-containing protein CRR2, chloroplastic38.400%Swiss-ProtMedium
Q9LW32Arabidopsis thalianasp|Q9LW32|PP258_ARATH Pentatricopeptide repeat-containing protein At3g26782, mitochondrial41.200%Swiss-ProtMedium

JBrowse

View in Genome Browser