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

TkA01G369950
Reference: TK1151 Chr: Chr01 Coordinates: 92176255-92182858 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

724 bp · TkA01G369950|TK1151|cDNA

AAAGCACCTATTTTAGCCTTTTCTAAAAGACGCACGCGGTCATCTTTTGGCAATAACTCCTCCTCATCGGACTCGACGCTGCTCATTACTCCTCTCATCTGCTCGACGCTGCTGTCGTTACTCCTCTCATCTGCTTCGCCATTACGATGCTCTGCATCGGCCCTCTGAAATCGATTCGGCATCTGCGAAATCGACTGTGGCATCTGTGATTTCGGCAATTACTCCTTGCTTCGACGCCCTCATCTCGATGCTCTGCCCTC...

CDS

Download CDS FASTA

1557 bp · TkA01G369950|TK1151|CDS

ATGAGTATCTTTGCCTCAACTCTTACCATCACGAAACAACTCTGTGCACCACCAAATGACCACATCGATAACCAGTTCCCTCATCCTCCTCGCACCCTTCCAATCCCCAGAAAACAGCACGCTATATTCAACCAGACAACCGGTGACGACTCCAGTTTCGGTGCTCTTAATGTCTCTTCATGGACCTCATCCATCGCTCGTTACTGCCGAACCGGCCGCTTAGATCGTGCTGCTGCCGAGTTCACTCGTATGAGAGTTGC...

Protein

Download Protein FASTA

518 aa · TkA01G369950|TK1151|PROTEIN

MSIFASTLTITKQLCAPPNDHIDNQFPHPPRTLPIPRKQHAIFNQTTGDDSSFGALNVSSWTSSIARYCRTGRLDRAAAEFTRMRVAGVEPNHITFVTLLSSCADFPHALSFGVSVHALACKFGFHKDNVKVGTAIIDMYCKCNRVATACLCFEKMSFKNKVTWNTLVGGLMRNGEITRAVQVFDEMPERDVISYTTLIDGFVKKGHYEHALEWFQEMQAFGIEPDHVTIVSAISACANLGSLGLGFWLHHLVSKKNMTE...

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 IDTkA01G369950
TK1151 IDTkA01G369950
OH-1004 IDLXL04_006132
Relationship / confidenceNon Reciprocal Best Hit / Complex relationship
Protein identity (%)34.400
Protein coverage (%)TK1151 87.838 / OH-1004 65.581
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 IDTkA01G369950
LocationChr01:92176255-92182858 (-)
DescriptionSimilar to PCMP-E23: Pentatricopeptide repeat-containing protein At2g34400
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At1g05750 Pentatricopeptide repeat-containing protein At1g05750, chloroplastic. No verified direct reference in this release
At3g22690 Pentatricopeptide repeat-containing protein At3g22690. No verified direct reference in this release
At1g08070 Involved in multiple sites RNA editing events in chloroplasts. No verified direct reference in this release
At4g37380 Plays a major role in single RNA editing events in chloroplasts. No verified direct reference in this release
At5g48910 Pentatricopeptide repeat-containing protein At5g48910. 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_006132 · 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:0016556 mRNA modification Biological Process
GO:0031425 chloroplast RNA processing Biological Process
GO:0080156 mitochondrial mRNA 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
GO:0008270 zinc ion binding Molecular Function
KEGG gene cross-reference
ath:AT1G08070
ath:AT2G22410
ath:AT2G29760
ath:AT2G34400
ath:AT3G12770
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.

Mitochondrion0.599
Rank 1 · TkA01G369950 · TK1151
Plastid0.251
Rank 2 · TkA01G369950 · TK1151
Nucleus0.060
Rank 3 · TkA01G369950 · TK1151
Cytoplasm0.034
Rank 4 · TkA01G369950 · TK1151
Cell membrane0.006
Rank 5 · TkA01G369950 · 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_356-104 aa
PF13041PPR_257-104 aa
PF12854PPR_157-84 aa
PF01535PPR60-88 aa
PF13428TPR_1461-87 aa
PF17177PPR_long64-106 aa
PF23276TPR_2466-104 aa
PF07719TPR_268-83 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA01G369950PF13812PPR_3561044.5e-2588.2
TkA01G369950PF13041PPR_2571042.4e-60201.2
TkA01G369950PF12854PPR_157849.5e-38128.3
TkA01G369950PF01535PPR60882.1e-52172.5
TkA01G369950PF13428TPR_1461870.009717.2
TkA01G369950PF17177PPR_long641061.6e-1351.2
TkA01G369950PF23276TPR_24661042.6e-1660.4
TkA01G369950PF07719TPR_268830.01516.1
TkA01G369950PF12854PPR_1881029.5e-38128.3
TkA01G369950PF01535PPR941042.1e-52172.5
TkA01G369950PF29070MSC6_N1292153.4e-0730.4
TkA01G369950PF13041PPR_21341592.4e-60201.2
TkA01G369950PF01535PPR1341572.1e-52172.5
TkA01G369950PF12854PPR_11341579.5e-38128.3
TkA01G369950PF24760TPR_IF140_C1351560.2212.6
TkA01G369950PF07719TPR_21401550.01516.1

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
Q9MA50Arabidopsis thalianasp|Q9MA50|PPR13_ARATH Pentatricopeptide repeat-containing protein At1g05750, chloroplastic52.000%Swiss-ProtHigh
Q9LUJ2Arabidopsis thalianasp|Q9LUJ2|PP249_ARATH Pentatricopeptide repeat-containing protein At3g2269040.600%Swiss-ProtMedium
Q9LN01Arabidopsis thalianasp|Q9LN01|PPR21_ARATH Pentatricopeptide repeat-containing protein At1g08070, chloroplastic34.700%Swiss-ProtMedium
Q9SZT8Arabidopsis thalianasp|Q9SZT8|PP354_ARATH Pentatricopeptide repeat-containing protein ELI1, chloroplastic38.000%Swiss-ProtMedium
Q9FI80Arabidopsis thalianasp|Q9FI80|PP425_ARATH Pentatricopeptide repeat-containing protein At5g4891037.000%Swiss-ProtMedium

JBrowse

View in Genome Browser