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

TkA08G076890
Reference: TK1151 Chr: Chr08 Coordinates: 19734578-19737043 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2466 bp · TkA08G076890|TK1151|cDNA

ATGATCGTCTTTCCTTTGAGACTTGGAAGATCAGTGACAACCACCACCAATCTGAAAAGACAATGTTCGTTATATCCATGCTCTCACTACACCACAAACACCGTGGACGCTACAACAATAAAAACGGGCTTCCACCCGAACACATCACGCTCCAACTTTCTCCTCAAAGATCTTGTAGCCAATGGGGAAGTATCGCAAGCACACCAACTGTTCGATCAAATGCCCCATAGAAACACATACTCATTCAACACTTTGATATC...

CDS

Download CDS FASTA

2466 bp · TkA08G076890|TK1151|CDS

ATGATCGTCTTTCCTTTGAGACTTGGAAGATCAGTGACAACCACCACCAATCTGAAAAGACAATGTTCGTTATATCCATGCTCTCACTACACCACAAACACCGTGGACGCTACAACAATAAAAACGGGCTTCCACCCGAACACATCACGCTCCAACTTTCTCCTCAAAGATCTTGTAGCCAATGGGGAAGTATCGCAAGCACACCAACTGTTCGATCAAATGCCCCATAGAAACACATACTCATTCAACACTTTGATATC...

Protein

Download Protein FASTA

821 aa · TkA08G076890|TK1151|PROTEIN

MIVFPLRLGRSVTTTTNLKRQCSLYPCSHYTTNTVDATTIKTGFHPNTSRSNFLLKDLVANGEVSQAHQLFDQMPHRNTYSFNTLISGYVKSGNLTRARGLFDEMNVRTEVSWTILIGGYKQQNQPVDAFKLYAEMCRWGTPPDDVTFVTLLPCCNETLMTEIITQVHSHIIKLGFNYAIEVCNSLLDAYCKTGTLELANRLFIEMPTKDSVTFNTMITGYSNEGLNNQAINLFLEMKHLGLIPSEYTFAAVIRATMGIN...

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 IDTkA08G076890
TK1151 IDTkA08G076890
OH-1004 IDLXL04_018661
Relationship / confidenceRbh High Identity Coverage Synteny / Strict
Protein identity (%)100.000
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 IDTkA08G076890
LocationChr08:19734578-19737043 (+)
DescriptionSimilar to PCMP-H36: Putative pentatricopeptide repeat-containing protein At2g01510
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At3g02010 Putative pentatricopeptide repeat-containing protein At2g01510. No verified direct reference in this release
At3g03580 Pentatricopeptide repeat-containing protein At3g03580. No verified direct reference in this release
At4g33170 Pentatricopeptide repeat-containing protein At4g33170. No verified direct reference in this release
At3g23330 Putative pentatricopeptide repeat-containing protein At3g23330. 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

Rice

No hit for this species in the current source table.

Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_018661 · 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
GO:0003729 mRNA binding Molecular Function
GO:0008270 zinc ion binding Molecular Function
KEGG gene cross-reference
ath:AT3G02010
ath:AT3G03580
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.

Mitochondrion0.650
Rank 1 · TkA08G076890 · TK1151
Plastid0.212
Rank 2 · TkA08G076890 · TK1151
Nucleus0.046
Rank 3 · TkA08G076890 · TK1151
Cytoplasm0.036
Rank 4 · TkA08G076890 · TK1151
Cell membrane0.006
Rank 5 · TkA08G076890 · 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_342-74 aa
PF29070MSC6_N45-202 aa
PF13041PPR_249-78 aa
PF24760TPR_IF140_C53-74 aa
PF01535PPR54-77 aa
PF13428TPR_1455-73 aa
PF14559TPR_1958-77 aa
PF12854PPR_161-74 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA08G076890PF13812PPR_342747.9e-2690.6
TkA08G076890PF29070MSC6_N452021.3e-1764.7
TkA08G076890PF13041PPR_249781.1e-90298.3
TkA08G076890PF24760TPR_IF140_C53740.01816.2
TkA08G076890PF01535PPR54771.2e-79257.8
TkA08G076890PF13428TPR_1455739.1e-0626.6
TkA08G076890PF14559TPR_1958770.005517.7
TkA08G076890PF12854PPR_161748.7e-51170.1
TkA08G076890PF23276TPR_24641044.9e-1659.6
TkA08G076890PF22330Rib_mS39_PPR65914.6e-0833.8
TkA08G076890PF12854PPR_1771058.7e-51170.1
TkA08G076890PF13041PPR_2781061.1e-90298.3
TkA08G076890PF13812PPR_3781057.9e-2690.6
TkA08G076890PF01535PPR801051.2e-79257.8
TkA08G076890PF17049AEP1801054.7e-0523.4
TkA08G076890PF24760TPR_IF140_C821050.01816.2

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
Q9S7F4Arabidopsis thalianasp|Q9S7F4|PP206_ARATH Putative pentatricopeptide repeat-containing protein At2g0151055.600%Swiss-ProtHigh
Q9SS60Arabidopsis thalianasp|Q9SS60|PP210_ARATH Pentatricopeptide repeat-containing protein At3g0358036.700%Swiss-ProtMedium
Q9SMZ2Arabidopsis thalianasp|Q9SMZ2|PP347_ARATH Pentatricopeptide repeat-containing protein At4g3317035.900%Swiss-ProtMedium
Q9LW63Arabidopsis thalianasp|Q9LW63|PP251_ARATH Putative pentatricopeptide repeat-containing protein At3g2333036.600%Swiss-ProtMedium
Q3E6Q1Arabidopsis thalianasp|Q3E6Q1|PPR32_ARATH Pentatricopeptide repeat-containing protein At1g11290, chloroplastic35.600%Swiss-ProtMedium

JBrowse

View in Genome Browser