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

TkA01G077100
Reference: TK1151 Chr: Chr01 Coordinates: 19681451-19683692 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2076 bp · TkA01G077100|TK1151|cDNA

AGGCTGTAATTTCTGCGTAGTGGAAGCCGGAAGGTATATCATCTTTTGAAACTCTCTTTTTTTTTGCAGCCAATAGCCAACATGATGGACGTCGACGATGACGATGAACTTCTGATCTTGCTCTCCGACTCCGATGACCACCGTGAACGCATCACCGACCGTTCCGACCTTGATCTGGCTTTCCAACTGCAAATGCAAGAGGCGATAAAAATCTCTTCATCGTCGTCTATGTCTTCCTCTAACCAACCATACTTCATCGA...

CDS

Download CDS FASTA

1560 bp · TkA01G077100|TK1151|CDS

ATGATGGACGTCGACGATGACGATGAACTTCTGATCTTGCTCTCCGACTCCGATGACCACCGTGAACGCATCACCGACCGTTCCGACCTTGATCTGGCTTTCCAACTGCAAATGCAAGAGGCGATAAAAATCTCTTCATCGTCGTCTATGTCTTCCTCTAACCAACCATACTTCATCGACCTAAACGAAACTCCAGATTTGTTTTCCGGAACTGATGGAACTTTCGTCAAGTGTGAGCGCGAAAGCAACTACCGGGATTT...

Protein

Download Protein FASTA

519 aa · TkA01G077100|TK1151|PROTEIN

MMDVDDDDELLILLSDSDDHRERITDRSDLDLAFQLQMQEAIKISSSSSMSSSNQPYFIDLNETPDLFSGTDGTFVKCERESNYRDFVEAELKNMNENLNRMERDQAFPCQILDVPDVDITRNLDCFEKPYALLPPSSEEVSRVYFRGLVSDELIMNVKMSFAGIGVAICDSSDCCLFESRKSFLVSGTDGEDDAVELKALIEALNSAVTLGLKRVLIFCNSNSVYQYLTGKGKPTNNKITTLINHLNQIQTNFTYCSPY...

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 IDTkA01G077100
TK1151 IDTkA01G077100
OH-1004 IDLXL04_005197
Relationship / confidenceRbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)67.500
Protein coverage (%)TK1151 94.605 / OH-1004 46.566
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 IDTkA01G077100
LocationChr01:19681451-19683692 (-)
DescriptionSimilar to rbrA: Probable E3 ubiquitin-protein ligase rbrA
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At2g26130 Acts as an E3 ubiquitin-protein ligase, or as part of E3 complex, which accepts ubiquitin from specific E2 ubiquitin-conjugating enzymes and then transfers it to substrates.
A forward genetic approach in Arabidopsis thaliana identifies a RING-type ubiquitin ligase as a novel determinant of seed longevity.2014 · DOI: 10.1016/j.plantsci.2013.11.004

Rice

No hit for this species in the current source table.

Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_005197 · 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:0000209 protein polyubiquitination Biological Process
GO:0006511 ubiquitin-dependent protein catabolic process Biological Process
GO:0009738 abscisic acid-activated signaling pathway Biological Process
GO:0009740 gibberellic acid mediated signaling pathway Biological Process
GO:0009788 negative regulation of abscisic acid-activated signaling pathway Biological Process
GO:0010431 seed maturation Biological Process
GO:0010476 gibberellin mediated signaling pathway Biological Process
GO:0016567 protein ubiquitination Biological Process
GO:0030435 sporulation resulting in formation of a cellular spore Biological Process
GO:0140547 acquisition of seed longevity Biological Process
GO:0000151 ubiquitin ligase complex Cellular Component
GO:0005634 nucleus Cellular Component
KEGG gene cross-reference
ath:AT2G26130
ath:AT4G01020
ddi:DDB_G0286961
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.

Nucleus0.645
Rank 1 · TkA01G077100 · TK1151
Cytoplasm0.349
Rank 2 · TkA01G077100 · TK1151
Cell membrane0.064
Rank 3 · TkA01G077100 · TK1151
Endoplasmic reticulum0.039
Rank 4 · TkA01G077100 · TK1151
Lysosome / Vacuole0.022
Rank 5 · TkA01G077100 · 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.

PF13456RVT_3159-277 aa
PF26200Rcat_RNF216198-225 aa
PF01485IBR247-258 aa
PF26200Rcat_RNF216294-331 aa
PF13639zf-RING_2297-342 aa
PF00097zf-C3HC4298-342 aa
PF07975C1_4307-324 aa
PF22191IBR_1312-329 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA01G077100PF13456RVT_31592776.2e-1865.6
TkA01G077100PF26200Rcat_RNF2161982250.01316.7
TkA01G077100PF01485IBR2472583.1e-1247.1
TkA01G077100PF26200Rcat_RNF2162943310.01316.7
TkA01G077100PF13639zf-RING_22973420.004617.9
TkA01G077100PF00097zf-C3HC42983420.0004720.7
TkA01G077100PF07975C1_43073240.04214.8
TkA01G077100PF22191IBR_13123290.0002321.7
TkA01G077100PF01485IBR3143273.1e-1247.1
TkA01G077100PF01485IBR3373503.1e-1247.1
TkA01G077100PF01485IBR3804363.1e-1247.1
TkA01G077100PF07975C1_43954370.04214.8
TkA01G077100PF26200Rcat_RNF2163984250.01316.7
TkA01G077100PF29549FAR1_C4094320.2312.0
TkA01G077100PF22191IBR_14134320.0002321.7
TkA01G077100PF00097zf-C3HC44154370.0004720.7

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
F4ITM1Arabidopsis thalianasp|F4ITM1|RGSL1_ARATH E3 ubiquitin-protein ligase RSL136.300%Swiss-ProtMedium

JBrowse

View in Genome Browser