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

TkA03G398780
Reference: TK1151 Chr: Chr03 Coordinates: 99100592-99108074 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

435 bp · TkA03G398780|TK1151|cDNA

ATGATGATGATGATGATTATGATAGCGGGATTCGTGGACTCCATAACGACGCCCATCAAGTCTTGGTTAGACACGGTGGCAAACACCCAGGACCACCACAAGACCACCAGCGTCGTGGTGACGGAGCTTGGTGGTGGAAGCCCTCGAGTTGACTGCATCGTGTGCTTATCTGAGGTGGCGATCGGAGAAAAGTTGGCGAGGTTAGAAAGGTGCCGACATGGATTTCATGTTGAGTGCGTTGAAGCATGGTTGAAAGACCA...

CDS

Download CDS FASTA

435 bp · TkA03G398780|TK1151|CDS

ATGATGATGATGATGATTATGATAGCGGGATTCGTGGACTCCATAACGACGCCCATCAAGTCTTGGTTAGACACGGTGGCAAACACCCAGGACCACCACAAGACCACCAGCGTCGTGGTGACGGAGCTTGGTGGTGGAAGCCCTCGAGTTGACTGCATCGTGTGCTTATCTGAGGTGGCGATCGGAGAAAAGTTGGCGAGGTTAGAAAGGTGCCGACATGGATTTCATGTTGAGTGCGTTGAAGCATGGTTGAAAGACCA...

Protein

Download Protein FASTA

144 aa · TkA03G398780|TK1151|PROTEIN

MMMMMIMIAGFVDSITTPIKSWLDTVANTQDHHKTTSVVVTELGGGSPRVDCIVCLSEVAIGEKLARLERCRHGFHVECVEAWLKDHRNCPLCRTPLSGGVYLRKLYEMMSYYSFRALELMADWLTSSFSRGLHSSLSESCSYL

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 IDTkA03G398780
TK1151 IDTkA03G398780
OH-1004 IDLXL04_009109
Relationship / confidenceRbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)88.800
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 IDTkA03G398780
LocationChr03:99100592-99108074 (-)
DescriptionSimilar to ATL79: RING-H2 finger protein ATL79
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At2g37580 RING-H2 finger protein ATL33. No verified direct reference in this release
At3g14320 Putative RING-H2 finger protein ATL61. No verified direct reference in this release
At4g28890 E3 ubiquitin-protein ligase able to catalyze polyubiquitination with ubiquitin-conjugating enzyme E2 UBC8 in vitro. No verified direct reference in this release
At5g43420 RING-H2 finger protein ATL16. No verified direct reference in this release
At2g25410 RING-H2 finger protein ATL22. 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_009109 · 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:0009555 pollen development Biological Process
GO:0009901 anther dehiscence Biological Process
GO:0016567 protein ubiquitination Biological Process
GO:0048443 stamen development Biological Process
GO:0080141 regulation of jasmonic acid biosynthetic process Biological Process
GO:0005634 nucleus Cellular Component
GO:0016020 membrane Cellular Component
GO:0004842 ubiquitin-protein transferase activity Molecular Function
GO:0008270 zinc ion binding Molecular Function
GO:0061630 ubiquitin protein ligase activity Molecular Function
KEGG gene cross-reference
ath:AT2G37580
ath:AT3G03550
ath:AT5G05280
ath:AT5G47610
dosa:Os04g0590900
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.

Cytoplasm0.394
Rank 1 · TkA03G398780 · TK1151
Nucleus0.375
Rank 2 · TkA03G398780 · TK1151
Cell membrane0.176
Rank 3 · TkA03G398780 · TK1151
Endoplasmic reticulum0.120
Rank 4 · TkA03G398780 · TK1151
Golgi apparatus0.093
Rank 5 · TkA03G398780 · 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.

PF12678zf-rbx119-25 aa
PF12906RINGv19-30 aa
PF23413zf_RING_Vps8_fungal49-56 aa
PF14446Prok-RING_150-80 aa
PF11793FANCL_C50-88 aa
PF13639zf-RING_251-94 aa
PF17123zf-RING_1151-80 aa
PF13920zf-C3HC4_351-97 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA03G398780PF12678zf-rbx119258.5e-0833.0
TkA03G398780PF12906RINGv19301.210.1
TkA03G398780PF23413zf_RING_Vps8_fungal49560.0513.6
TkA03G398780PF14446Prok-RING_150800.01316.4
TkA03G398780PF11793FANCL_C50880.3412.0
TkA03G398780PF13639zf-RING_251941.4e-1248.3
TkA03G398780PF17123zf-RING_1151802.2e-0834.4
TkA03G398780PF13920zf-C3HC4_351978e-0523.1
TkA03G398780PF17120zf-RING_1651910.01615.6
TkA03G398780PF25447RING_ZNF598511110.03815.0
TkA03G398780PF22191IBR_151851.59.5
TkA03G398780PF13923zf-C3HC4_252935.8e-0729.9
TkA03G398780PF00097zf-C3HC452938.4e-0729.5
TkA03G398780PF14634zf-RING_552950.0009719.8
TkA03G398780PF08746zf-RING-like52930.02215.6
TkA03G398780PF13445zf-RING_UBOX52910.05214.3

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
O80927Arabidopsis thalianasp|O80927|ATL33_ARATH RING-H2 finger protein ATL3341.800%Swiss-ProtLow
Q9LUL6Arabidopsis thalianasp|Q9LUL6|ATL61_ARATH Putative RING-H2 finger protein ATL6151.100%Swiss-ProtLow
Q5XF85Arabidopsis thalianasp|Q5XF85|ATL42_ARATH E3 ubiquitin-protein ligase ATL4246.400%Swiss-ProtLow
Q9LSW9Arabidopsis thalianasp|Q9LSW9|ATL16_ARATH RING-H2 finger protein ATL1650.000%Swiss-ProtLow
Q9SKK8Arabidopsis thalianasp|Q9SKK8|ATL22_ARATH RING-H2 finger protein ATL2252.000%Swiss-ProtLow

JBrowse

View in Genome Browser