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

TkA01G125410
Reference: TK1151 Chr: Chr01 Coordinates: 31654471-31656921 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1956 bp · TkA01G125410|TK1151|cDNA

ATGCCCCAGAGAGACATCTCTGTTTCTAATCATAACCACCTACTTTTCGAGTATGCTCGAACCAATAACAACGCTCAAGCTCTCAAACACTTTTTAGGAATTCGTCGTTTGGGTTTACCAGTCAACGGAGCAAGCTTCTCGTGTGTTCTTAAGATCTGTGGAAGCTTGTGCGATCAAATAATAGGCAAACAAATACATTGCGATTGTATCAAATACGGGTTTGTTCACGATGTTAGCGTTGGCACTTCCCTCATCGATAT...

CDS

Download CDS FASTA

1956 bp · TkA01G125410|TK1151|CDS

ATGCCCCAGAGAGACATCTCTGTTTCTAATCATAACCACCTACTTTTCGAGTATGCTCGAACCAATAACAACGCTCAAGCTCTCAAACACTTTTTAGGAATTCGTCGTTTGGGTTTACCAGTCAACGGAGCAAGCTTCTCGTGTGTTCTTAAGATCTGTGGAAGCTTGTGCGATCAAATAATAGGCAAACAAATACATTGCGATTGTATCAAATACGGGTTTGTTCACGATGTTAGCGTTGGCACTTCCCTCATCGATAT...

Protein

Download Protein FASTA

651 aa · TkA01G125410|TK1151|PROTEIN

MPQRDISVSNHNHLLFEYARTNNNAQALKHFLGIRRLGLPVNGASFSCVLKICGSLCDQIIGKQIHCDCIKYGFVHDVSVGTSLIDMYTKTEAISMAEKVFDEMPDRNVVSWTSMLTGYSKSGMIRYARSVFDYMEIRDAVSWNGMISGLVANGHDLPALDLFHKMRLSGVKLTQSIFVTILKVCANIKEIRLSKQIHAEVIKTNYETSTSVGTALLDAYTKLGNMNDALKVFEMIQEKDIVTWSAILSGYAQSGDIDDA...

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 IDTkA01G125410
TK1151 IDTkA01G125410
OH-1004 IDLXL04_004682
Relationship / confidenceMulti Source To Oh1004 / Complex relationship
Protein identity (%)74.600
Protein coverage (%)TK1151 100.000 / OH-1004 93.471
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 IDTkA01G125410
LocationChr01:31654471-31656921 (-)
DescriptionSimilar to PCMP-H60: Pentatricopeptide repeat-containing protein At2g27610
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At2g27610 Pentatricopeptide repeat-containing protein At2g27610. No verified direct reference in this release
At2g22070 Pentatricopeptide repeat-containing protein At2g22070. No verified direct reference in this release
At3g26782 Pentatricopeptide repeat-containing protein At3g26782, mitochondrial. No verified direct reference in this release
At3g49170 May play a role in embryogenesis. No verified direct reference in this release
At1g68930 Putative pentatricopeptide repeat-containing protein At1g68930. 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_004682 · 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:AT2G27610
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.

Mitochondrion0.630
Rank 1 · TkA01G125410 · TK1151
Plastid0.221
Rank 2 · TkA01G125410 · TK1151
Nucleus0.056
Rank 3 · TkA01G125410 · TK1151
Cytoplasm0.036
Rank 4 · TkA01G125410 · TK1151
Peroxisome0.007
Rank 5 · TkA01G125410 · 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_37-54 aa
PF03704BTAD11-36 aa
PF13041PPR_212-53 aa
PF23276TPR_2414-51 aa
PF17177PPR_long15-132 aa
PF07719TPR_218-31 aa
PF13812PPR_368-104 aa
PF18066Phage_ABA_S75-107 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA01G125410PF13812PPR_37545.3e-34116.8
TkA01G125410PF03704BTAD11360.06514.3
TkA01G125410PF13041PPR_212532.2e-59198.1
TkA01G125410PF23276TPR_2414518.3e-1865.3
TkA01G125410PF17177PPR_long151329.4e-1761.8
TkA01G125410PF07719TPR_218310.1513.0
TkA01G125410PF13812PPR_3681045.3e-34116.8
TkA01G125410PF18066Phage_ABA_S751070.0006321.0
TkA01G125410PF25058ARM_TT21761040.06413.9
TkA01G125410PF13041PPR_2771092.2e-59198.1
TkA01G125410PF01535PPR821096e-60196.1
TkA01G125410PF12854PPR_1831045.2e-38129.2
TkA01G125410PF23276TPR_24831098.3e-1865.3
TkA01G125410PF29070MSC6_N831238.7e-1142.2
TkA01G125410PF14559TPR_19921060.0002322.1
TkA01G125410PF22330Rib_mS39_PPR951210.0001522.3

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
Q9ZUW3Arabidopsis thalianasp|Q9ZUW3|PP172_ARATH Pentatricopeptide repeat-containing protein At2g2761045.800%Swiss-ProtMedium
Q9SHZ8Arabidopsis thalianasp|Q9SHZ8|PP168_ARATH Pentatricopeptide repeat-containing protein At2g2207048.600%Swiss-ProtMedium
Q9LW32Arabidopsis thalianasp|Q9LW32|PP258_ARATH Pentatricopeptide repeat-containing protein At3g26782, mitochondrial38.400%Swiss-ProtMedium
Q5G1T1Arabidopsis thalianasp|Q5G1T1|PP272_ARATH Pentatricopeptide repeat-containing protein At3g49170, chloroplastic36.000%Swiss-ProtMedium
Q9CAA8Arabidopsis thalianasp|Q9CAA8|PP108_ARATH Putative pentatricopeptide repeat-containing protein At1g6893039.800%Swiss-ProtMedium

JBrowse

View in Genome Browser