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

TkA01G019520
Reference: TK1151 Chr: Chr01 Coordinates: 5022356-5024791 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1897 bp · TkA01G019520|TK1151|cDNA

ATATATTAGTGCAAAGTGGAGGAGGTCTGGAGGGTCCCTTGGTCCTTAGTGCGATGTTATGCGAGCTTATGATCATGGGAAAGAATAATCATAATGTTTCCCTTTGATCAGTTCTTGCTTCATGTCAAAAGGCATTACTTATAGTGATCATATTCCACATCTTTGTTTTTCCTTTTTTATTTGTCATTTTCATATCTAACTCATAACCCATGTAATCTCCATCAAACATGATCCACTAAAGCTTGTTCCATATATGCACC...

CDS

Download CDS FASTA

678 bp · TkA01G019520|TK1151|CDS

ATGGGGTACCTTCAAACTTCAAGTACAAGTGGTGATGTTAGCTCTCACTTGTATTCTCAAGCACTTCAAATGAAGTTATACCAAGCATTCATATTTTCCATTCCAATACTCTTCTCCATAATACTTTTTCTCCTGTTTTACTTGTTCTACCTCAAAAGAACTTTTAGCAACACCAATTCTTCATCTTCTGCATCTATTCTCCATCTAAGAACCTCAAGGAATCAAGATTCTTCAACTCTTCATCAATATATCGATACGGG...

Protein

Download Protein FASTA

225 aa · TkA01G019520|TK1151|PROTEIN

MGYLQTSSTSGDVSSHLYSQALQMKLYQAFIFSIPILFSIILFLLFYLFYLKRTFSNTNSSSSASILHLRTSRNQDSSTLHQYIDTGSKINLEDKLSVILFDEDLYTKDSMCCVCLGEFEMDEKLHQIPSCQHMFHGDCIRNWLHSNFTCPLCRCSVVVSAAKDSNHEPPVVPEPATMTNMSSSSQGVPLEHSVIIFDEGSSSSSMDNKLSHPNQESVVISVVYP

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 IDTkA01G019520
TK1151 IDTkA01G019520
OH-1004 IDLXL04_005738
Relationship / confidenceRbh High Identity Coverage Synteny / Strict
Protein identity (%)99.100
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 IDTkA01G019520
LocationChr01:5022356-5024791 (-)
DescriptionSimilar to RHA4A: Probable E3 ubiquitin-protein ligase RHA4A
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At4g24015 Probable E3 ubiquitin-protein ligase that may possess E3 ubiquitin ligase activity in vitro. No verified direct reference in this release
At1g33480 RING-H2 finger protein ATL58. No verified direct reference in this release
At4g10150 RING-H2 finger protein ATL7. No verified direct reference in this release
At4g10160 E3 ubiquitin-protein ligase able to catalyze polyubiquitination with ubiquitin-conjugating enzyme E2 UBC8, UBC10, UBC11, and UBC34 in vitro. No verified direct reference in this release
At5g46650 RING-H2 finger protein ATL30. 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_005738 · 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:0006511 ubiquitin-dependent protein catabolic process Biological Process
GO:0016567 protein ubiquitination Biological Process
GO:0005634 nucleus Cellular Component
GO:0009507 chloroplast 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:AT1G23980
ath:AT1G33480
ath:AT4G10150
ath:AT4G10160
ath:AT4G24015
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.

Lysosome / Vacuole0.252
Rank 1 · TkA01G019520 · TK1151
Cytoplasm0.251
Rank 2 · TkA01G019520 · TK1151
Cell membrane0.234
Rank 3 · TkA01G019520 · TK1151
Nucleus0.217
Rank 4 · TkA01G019520 · TK1151
Endoplasmic reticulum0.217
Rank 5 · TkA01G019520 · 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.

PF00895ATP-synt_836-68 aa
PF17120zf-RING_16109-155 aa
PF13920zf-C3HC4_3109-157 aa
PF13639zf-RING_2111-154 aa
PF13923zf-C3HC4_2111-153 aa
PF17123zf-RING_11112-140 aa
PF00097zf-C3HC4112-153 aa
PF13445zf-RING_UBOX112-151 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA01G019520PF00895ATP-synt_836680.3312.1
TkA01G019520PF17120zf-RING_161091550.01415.7
TkA01G019520PF13920zf-C3HC4_31091570.4811.0
TkA01G019520PF13639zf-RING_21111542.3e-1247.7
TkA01G019520PF13923zf-C3HC4_21111533.1e-0627.6
TkA01G019520PF17123zf-RING_111121406.7e-0729.6
TkA01G019520PF00097zf-C3HC41121537.5e-0523.2
TkA01G019520PF13445zf-RING_UBOX1121510.0004420.9
TkA01G019520PF14634zf-RING_51121540.03914.6
TkA01G019520PF11793FANCL_C1121496.67.8
TkA01G019520PF12678zf-rbx11241545.4e-0730.5
TkA01G019520PF12861zf-ANAPC111281590.003318.2
TkA01G019520PF23413zf_RING_Vps8_fungal1301540.04713.7
TkA01G019520PF11789zf-Nse1301561.19.9
TkA01G019520PF106053HBOH1522130.09411.7

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
Q84TF5Arabidopsis thalianasp|Q84TF5|RHA4A_ARATH Probable E3 ubiquitin-protein ligase RHA4A56.900%Swiss-ProtMedium
Q570X5Arabidopsis thalianasp|Q570X5|ATL58_ARATH RING-H2 finger protein ATL5839.100%Swiss-ProtMedium
Q9SN28Arabidopsis thalianasp|Q9SN28|ATL7_ARATH RING-H2 finger protein ATL739.500%Swiss-ProtMedium
Q9SN27Arabidopsis thalianasp|Q9SN27|ATL59_ARATH E3 ubiquitin-protein ligase ATL5933.900%Swiss-ProtLow
Q9FIR0Arabidopsis thalianasp|Q9FIR0|ATL30_ARATH RING-H2 finger protein ATL3050.000%Swiss-ProtLow

JBrowse

View in Genome Browser