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

TkA02G572910
Reference: TK1151 Chr: Chr02 Coordinates: 147979337-147979891 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

555 bp · TkA02G572910|TK1151|cDNA

ATGGGGTTTCTTCCCCACGTCGTTCTAGAAACCGCTCTAATCGATATGTACGGGAAATGCGGAAATCCAAAACTATCGGAAATAATCTTTAACCGAATGGATCAAAGAAAATTAATATCCCGTAATACTCTGATCAACGCCCTAGTGAAAAACGGTAAATATCAAAACGCATTGAAGATCTTCCTGGATATTTGGAATGACGGTTTTAAACCAGATGCCACAACGATTACCCTGATACTCGATTTTATTCCCGATATAGC...

CDS

Download CDS FASTA

555 bp · TkA02G572910|TK1151|CDS

ATGGGGTTTCTTCCCCACGTCGTTCTAGAAACCGCTCTAATCGATATGTACGGGAAATGCGGAAATCCAAAACTATCGGAAATAATCTTTAACCGAATGGATCAAAGAAAATTAATATCCCGTAATACTCTGATCAACGCCCTAGTGAAAAACGGTAAATATCAAAACGCATTGAAGATCTTCCTGGATATTTGGAATGACGGTTTTAAACCAGATGCCACAACGATTACCCTGATACTCGATTTTATTCCCGATATAGC...

Protein

Download Protein FASTA

184 aa · TkA02G572910|TK1151|PROTEIN

MGFLPHVVLETALIDMYGKCGNPKLSEIIFNRMDQRKLISRNTLINALVKNGKYQNALKIFLDIWNDGFKPDATTITLILDFIPDIAGLREVKQIHGYAVKSGFTPNTFVLNSLVYAYTKSGDLDSCQGFFNRILTKDIVSLNTIILANGFHGSGEISLNLFSKMMKTDIKTEFEHFLFGFIRL

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 IDTkA02G572910
TK1151 IDTkA02G572910
OH-1004 IDLXL04_009678
Relationship / confidenceNon Reciprocal Best Hit / Complex relationship
Protein identity (%)93.000
Protein coverage (%)TK1151 92.935 / OH-1004 21.402
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 IDTkA02G572910
LocationChr02:147979337-147979891 (+)
DescriptionSimilar to PCMP-H27: Pentatricopeptide repeat-containing protein At4g35130, chloroplastic
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At4g35130 Pentatricopeptide repeat-containing protein At4g35130, chloroplastic. No verified direct reference in this release
At3g05340 Pentatricopeptide repeat-containing protein At3g05340. No verified direct reference in this release
At1g03540 Pentatricopeptide repeat-containing protein At1g03540. No verified direct reference in this release
At1g11290 Involved in multiple sites RNA editing events in chloroplasts.
Pentatricopeptide repeat proteins with the DYW motif have distinct molecular functions in RNA editing and RNA cleavage in Arabidopsis chloroplasts.2009 · DOI: 10.1105/tpc.108.064667
At1g56570 Putative pentatricopeptide repeat-containing protein At1g56570. 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_009678 · 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:0009451 RNA modification Biological Process
GO:0010087 phloem or xylem histogenesis Biological Process
GO:0010305 leaf vascular tissue pattern formation Biological Process
GO:0010588 cotyledon vascular tissue pattern formation Biological Process
GO:0016556 mRNA modification Biological Process
GO:0048366 leaf development Biological Process
GO:1900865 chloroplast RNA modification Biological Process
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:AT1G11290
ath:AT4G18750
ath:AT4G35130
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.

Mitochondrion0.715
Rank 1 · TkA02G572910 · TK1151
Plastid0.136
Rank 2 · TkA02G572910 · TK1151
Cytoplasm0.045
Rank 3 · TkA02G572910 · TK1151
Nucleus0.031
Rank 4 · TkA02G572910 · TK1151
Peroxisome0.008
Rank 5 · TkA02G572910 · 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.

PF12854PPR_12-33 aa
PF08837DUF18103-73 aa
PF13812PPR_34-37 aa
PF13041PPR_25-37 aa
PF17327AHL_synthase7-61 aa
PF01535PPR11-36 aa
PF13428TPR_1412-33 aa
PF23276TPR_2419-133 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA02G572910PF12854PPR_12330.0002921.2
TkA02G572910PF08837DUF18103730.1312.9
TkA02G572910PF13812PPR_34371.4e-0732.2
TkA02G572910PF13041PPR_25372.3e-1866.7
TkA02G572910PF17327AHL_synthase7610.05113.5
TkA02G572910PF01535PPR11365e-1967.9
TkA02G572910PF13428TPR_1412330.2213.0
TkA02G572910PF23276TPR_24191330.0002621.6
TkA02G572910PF01535PPR42695e-1967.9
TkA02G572910PF13041PPR_242812.3e-1866.7
TkA02G572910PF13812PPR_342831.4e-0732.2
TkA02G572910PF12854PPR_142610.0002921.2
TkA02G572910PF29834SOV1_C42610.007616.0
TkA02G572910PF29070MSC6_N431329.7e-0625.6
TkA02G572910PF13428TPR_1443620.2213.0
TkA02G572910PF13812PPR_3591181.4e-0732.2

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
O49619Arabidopsis thalianasp|O49619|PP350_ARATH Pentatricopeptide repeat-containing protein At4g35130, chloroplastic49.700%Swiss-ProtMedium
Q9MA85Arabidopsis thalianasp|Q9MA85|PP215_ARATH Pentatricopeptide repeat-containing protein At3g0534033.100%Swiss-ProtMedium
Q9LR69Arabidopsis thalianasp|Q9LR69|PPR8_ARATH Pentatricopeptide repeat-containing protein At1g0354029.400%Swiss-ProtLow
Q3E6Q1Arabidopsis thalianasp|Q3E6Q1|PPR32_ARATH Pentatricopeptide repeat-containing protein At1g11290, chloroplastic31.200%Swiss-ProtMedium
Q9FXA9Arabidopsis thalianasp|Q9FXA9|PPR83_ARATH Putative pentatricopeptide repeat-containing protein At1g5657029.500%Swiss-ProtLow

JBrowse

View in Genome Browser