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

TkA01G520610
Reference: TK1151 Chr: Chr01 Coordinates: 130537901-130540543 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2552 bp · TkA01G520610|TK1151|cDNA

GACTTTTCGAAAGTCTGCATTCATGAAAATATCCCCACTCTTTCTCTTCTTCACACCCGGGAAGACTTCCCAGCACAAAGAACCACGGAGATGCAACTGAGCACCAGTAGTCGTGAACTATCACCCTTCATCTTCCCTCTCTCCTCTATTCCCTCCCTTGATAAAAGCTACACGGCACCCATGCGCACAACCCCATCCCTCCTCCGCTCTCTCTCCACCTCCCTCCCTAACCACCACCGCCGTATCCTCATCCAACGTAC...

CDS

Download CDS FASTA

2361 bp · TkA01G520610|TK1151|CDS

ATGCAACTGAGCACCAGTAGTCGTGAACTATCACCCTTCATCTTCCCTCTCTCCTCTATTCCCTCCCTTGATAAAAGCTACACGGCACCCATGCGCACAACCCCATCCCTCCTCCGCTCTCTCTCCACCTCCCTCCCTAACCACCACCGCCGTATCCTCATCCAACGTACTTTCTCCCTCTTTAAACCCCACCTTGTAAACCCTCCTCGAATCTCACTCTTTTGTACTCGCTCCGCGGAACAATCGTCAGTCAGTAATTT...

Protein

Download Protein FASTA

786 aa · TkA01G520610|TK1151|PROTEIN

MQLSTSSRELSPFIFPLSSIPSLDKSYTAPMRTTPSLLRSLSTSLPNHHRRILIQRTFSLFKPHLVNPPRISLFCTRSAEQSSVSNFVELLADENEDLEFDKDNEPFTFDASFGSNDDSKNLNLSPSLDVKELDELPEQWRRSKLAWLCKELPAHKAPTLIRILNAQRKWVNQEDMTYVTVHCMRIRENETGFRVYKWMMQQHWFRFDFSLATKLADYMGKERKYLKCREIFDDIINHGLIPTEYTFHILIISYLSSSNR...

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 IDTkA01G520610
TK1151 IDTkA01G520610
OH-1004 IDLXL04_001648
Relationship / confidenceRbh High Identity Coverage Synteny / Strict
Protein identity (%)99.700
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 IDTkA01G520610
LocationChr01:130537901-130540543 (-)
DescriptionSimilar to OTP51: Pentatricopeptide repeat-containing protein At2g15820, chloroplastic
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At2g15820 Promotes the splicing of group II introns in chloroplasts.
The pentatricopeptide repeat gene OTP51 with two LAGLIDADG motifs is required for the cis-splicing of plastid ycf3 intron 2 in Arabidopsis thaliana.2008 · DOI: 10.1111/j.1365-313x.2008.03581.x

Rice

Reference gene IDPossible functionPapers / DOI
Os02g0702000 Promotes the splicing of group II introns in chloroplasts.
A mutation of OSOTP 51 leads to impairment of photosystem I complex assembly and serious photo-damage in rice.2012 · DOI: 10.1111/j.1744-7909.2012.01094.x
Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_001648 · 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:0006388 tRNA splicing, via endonucleolytic cleavage and ligation Biological Process
GO:0010239 chloroplast mRNA processing Biological Process
GO:0045292 mRNA cis splicing, via spliceosome Biological Process
GO:0048564 photosystem I assembly Biological Process
GO:0005634 nucleus Cellular Component
GO:0005739 mitochondrion Cellular Component
GO:0009507 chloroplast Cellular Component
GO:0003729 mRNA binding Molecular Function
GO:0004519 endonuclease activity Molecular Function
KEGG gene cross-reference
ath:AT2G15630
ath:AT2G15820
ath:AT2G17140
dosa:Os02g0702000
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.

Mitochondrion0.706
Rank 1 · TkA01G520610 · TK1151
Plastid0.216
Rank 2 · TkA01G520610 · TK1151
Nucleus0.071
Rank 3 · TkA01G520610 · TK1151
Cytoplasm0.037
Rank 4 · TkA01G520610 · TK1151
Cell membrane0.012
Rank 5 · TkA01G520610 · 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_2183-201 aa
PF13041PPR_2217-251 aa
PF01535PPR220-240 aa
PF17177PPR_long223-292 aa
PF29070MSC6_N224-254 aa
PF13812PPR_3230-251 aa
PF23276TPR_24239-299 aa
PF12854PPR_1239-273 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA01G520610PF13041PPR_21832011.8e-1454.2
TkA01G520610PF13041PPR_22172511.8e-1454.2
TkA01G520610PF01535PPR2202403.8e-1658.8
TkA01G520610PF17177PPR_long2232929.5e-0729.1
TkA01G520610PF29070MSC6_N2242544.3e-2072.9
TkA01G520610PF13812PPR_32302516.1e-0523.7
TkA01G520610PF23276TPR_242392992e-0628.5
TkA01G520610PF12854PPR_12392730.0002221.6
TkA01G520610PF01535PPR2592773.8e-1658.8
TkA01G520610PF13041PPR_22592761.8e-1454.2
TkA01G520610PF13428TPR_142602830.0001323.0
TkA01G520610PF29070MSC6_N2613334.3e-2072.9
TkA01G520610PF13041PPR_23043211.8e-1454.2
TkA01G520610PF01535PPR3053203.8e-1658.8
TkA01G520610PF17177PPR_long3063879.5e-0729.1
TkA01G520610PF25062ARM_TT21_N3284846.2e-0626.8

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
Q9XIL5Arabidopsis thalianasp|Q9XIL5|PP154_ARATH Pentatricopeptide repeat-containing protein At2g15820, chloroplastic52.700%Swiss-ProtHigh
Q6ZHJ5Oryza sativa subsp. japonicasp|Q6ZHJ5|OTP51_ORYSJ Pentatricopeptide repeat-containing protein OTP51, chloroplastic52.600%Swiss-ProtHigh

JBrowse

View in Genome Browser