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

TkA04G011730
Reference: TK1151 Chr: Chr04 Coordinates: 2883369-2889374 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

4644 bp · TkA04G011730|TK1151|cDNA

ATGGTGGTGAATATATTAAACTCGCCTCTCACTTTGCCTCTTGTGGCATCACACCTCACTTCCCCTCCCCATACTCCTGAACACAATGGTTATGCCGAAAGGCGACATCACCATATTGTTGAAACTGCTTTATCTCTCCTGTCCCATGCCCATCTACCGCTTACTTTCTGGACATTTGTAGCTACTACTGCTTCTTATCTAATCAATCGCCTCCCCACCACCACCCTCAACAACGACTCTCCCTATTTTCGTCAATTCCA...

CDS

Download CDS FASTA

4644 bp · TkA04G011730|TK1151|CDS

ATGGTGGTGAATATATTAAACTCGCCTCTCACTTTGCCTCTTGTGGCATCACACCTCACTTCCCCTCCCCATACTCCTGAACACAATGGTTATGCCGAAAGGCGACATCACCATATTGTTGAAACTGCTTTATCTCTCCTGTCCCATGCCCATCTACCGCTTACTTTCTGGACATTTGTAGCTACTACTGCTTCTTATCTAATCAATCGCCTCCCCACCACCACCCTCAACAACGACTCTCCCTATTTTCGTCAATTCCA...

Protein

Download Protein FASTA

1547 aa · TkA04G011730|TK1151|PROTEIN

MVVNILNSPLTLPLVASHLTSPPHTPEHNGYAERRHHHIVETALSLLSHAHLPLTFWTFVATTASYLINRLPTTTLNNDSPYFRQFHKSPNYQKLHSFGCLAYPWLRPYTTQKLQPRSKPCIFIGYSSSQSAYHLFDPATSKIYTSRHVQFIETSFPYPTLTNTTTPPPPVPDTWLQVHILPIPNSTDVPTTPTSSTPQSPSPTSPSPITYTPPPTPPPSPPPPPPHNSTTPHTRRNPKPNPRYYNKDFLLYHSISQSLS...

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 IDTkA04G011730
TK1151 IDTkA04G011730
OH-1004 IDLXL04_035636
Relationship / confidenceMulti Source To Oh1004 / Complex relationship
Protein identity (%)93.400
Protein coverage (%)TK1151 46.671 / OH-1004 54.971
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 IDTkA04G011730
LocationChr04:2883369-2889374 (+)
DescriptionSimilar to TY3B-I: Transposon Ty3-I Gag-Pol polyprotein (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At4g02960 Retrovirus-related Pol polyprotein from transposon RE2. No verified direct reference in this release
UniProt: Q94HW2 Retrovirus-related Pol polyprotein from transposon RE1. 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_035636 · 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:0006310 DNA recombination Biological Process
GO:0006508 proteolysis Biological Process
GO:0015074 DNA integration Biological Process
GO:0075523 viral translational frameshifting Biological Process
GO:0005634 nucleus Cellular Component
GO:0005737 cytoplasm Cellular Component
GO:0003677 DNA binding Molecular Function
GO:0003723 RNA binding Molecular Function
GO:0003887 DNA-directed DNA polymerase activity Molecular Function
GO:0003964 RNA-directed DNA polymerase activity Molecular Function
GO:0004190 aspartic-type endopeptidase activity Molecular Function
GO:0004519 endonuclease activity Molecular Function
KEGG gene cross-reference
sce:YGR109W-B
sce:YIL082W-A
spo:2538755
spo:2541833
spo:2541991
spo:2542672
spo:2542797
spo:2543673
spo:3361218
spo:3361422
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.

Cytoplasm0.702
Rank 1 · TkA04G011730 · TK1151
Nucleus0.306
Rank 2 · TkA04G011730 · TK1151
Mitochondrion0.108
Rank 3 · TkA04G011730 · TK1151
Peroxisome0.062
Rank 4 · TkA04G011730 · TK1151
Endoplasmic reticulum0.035
Rank 5 · TkA04G011730 · 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.

PF29688TnsB_C20-44 aa
PF25597SH3_retrovirus100-160 aa
PF07727RVT_2288-525 aa
PF00078RVT_1360-377 aa
PF19377DUF5952427-460 aa
PF00078RVT_1446-479 aa
PF19960EAD7475-495 aa
PF11718CPSF73-100_C501-558 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA04G011730PF29688TnsB_C20448.6e-0729.6
TkA04G011730PF25597SH3_retrovirus1001602.5e-2279.1
TkA04G011730PF07727RVT_22885254.7e-84282.5
TkA04G011730PF00078RVT_13603777.7e-0833.2
TkA04G011730PF19377DUF59524274600.2712.1
TkA04G011730PF00078RVT_14464797.7e-0833.2
TkA04G011730PF19960EAD74754950.1612.6
TkA04G011730PF11718CPSF73-100_C5015580.07113.4
TkA04G011730PF09440eIF3_N5085410.01916.0
TkA04G011730PF13068DUF39325265510.1213.3
TkA04G011730PF19377DUF59525856210.2712.1
TkA04G011730PF07727RVT_25976864.7e-84282.5
TkA04G011730PF00078RVT_16106297.7e-0833.2
TkA04G011730PF19960EAD76376560.1612.6
TkA04G011730PF11718CPSF73-100_C6627190.07113.4
TkA04G011730PF09440eIF3_N6697020.01916.0

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
Q9ZT94Arabidopsis thalianasp|Q9ZT94|POLR2_ARATH Retrovirus-related Pol polyprotein from transposon RE237.700%Swiss-ProtMedium
Q94HW2Arabidopsis thalianasp|Q94HW2|POLR1_ARATH Retrovirus-related Pol polyprotein from transposon RE137.400%Swiss-ProtMedium

JBrowse

View in Genome Browser