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

TkA03G482060
Reference: TK1151 Chr: Chr03 Coordinates: 120576664-120578115 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

771 bp · TkA03G482060|TK1151|cDNA

TTAATAACCAAATGCAAGTTTTACATGTCTCTACATATATCACCATAATGAGCAACATCAACAACATCAATAATCGACAGTCTTTCGGACTTGCCAATGATGCATATGCACGCTACAACAATGGTGATAGGGTTCTTTTGGGCATTATATCTCCACCATCGATTCCCTTTCCTCATATCCTTAATGAGAGAGTTGGTATTGATCCATGGTTGTGGTCACTTGATGACAGAATCACTTTACCTTCCTCCATCATGAGTATC...

CDS

Download CDS FASTA

669 bp · TkA03G482060|TK1151|CDS

ATGCAAGTTTTACATGTCTCTACATATATCACCATAATGAGCAACATCAACAACATCAATAATCGACAGTCTTTCGGACTTGCCAATGATGCATATGCACGCTACAACAATGGTGATAGGGTTCTTTTGGGCATTATATCTCCACCATCGATTCCCTTTCCTCATATCCTTAATGAGAGAGTTGGTATTGATCCATGGTTGTGGTCACTTGATGACAGAATCACTTTACCTTCCTCCATCATGAGTATCCAACAACCTGG...

Protein

Download Protein FASTA

222 aa · TkA03G482060|TK1151|PROTEIN

MQVLHVSTYITIMSNINNINNRQSFGLANDAYARYNNGDRVLLGIISPPSIPFPHILNERVGIDPWLWSLDDRITLPSSIMSIQQPGMHLMVLRNNLANHTNLRSRQMDQSRTRDSNDQTKAVEKLRKEIYNPTPKKIIQRLGRFYKQTDGVKEVNKEDDDDNKRCAICLEDLEAKQLVMVTPCHHMFHEQCILPWVKTHGRCPVCRFSFLEKTRESEASSS

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 IDTkA03G482060
TK1151 IDTkA03G482060
OH-1004 IDLXL04_020129
Relationship / confidenceMulti Source To Oh1004 / Complex relationship
Protein identity (%)40.100
Protein coverage (%)TK1151 67.568 / OH-1004 53.091
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 IDTkA03G482060
LocationChr03:120576664-120578115 (+)
DescriptionSimilar to SDIR1: E3 ubiquitin-protein ligase SDIR1
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At3g19950 E3 ubiquitin-protein ligase which accepts ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. 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_020129 · 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:0009414 response to water deprivation Biological Process
GO:0009651 response to salt stress Biological Process
GO:0009737 response to abscisic acid Biological Process
GO:0009789 positive regulation of abscisic acid-activated signaling pathway Biological Process
GO:0016567 protein ubiquitination Biological Process
GO:0005634 nucleus Cellular Component
GO:0005737 cytoplasm Cellular Component
GO:0005789 endoplasmic reticulum 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:AT3G19950
ath:AT3G55530
mcf:102146898
xla:444028
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.

Cytoplasm0.499
Rank 1 · TkA03G482060 · TK1151
Nucleus0.497
Rank 2 · TkA03G482060 · TK1151
Cell membrane0.070
Rank 3 · TkA03G482060 · TK1151
Mitochondrion0.065
Rank 4 · TkA03G482060 · TK1151
Endoplasmic reticulum0.057
Rank 5 · TkA03G482060 · 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.

PF11789zf-Nse161-206 aa
PF14446Prok-RING_1162-203 aa
PF13920zf-C3HC4_3163-207 aa
PF17120zf-RING_16163-205 aa
PF26148VPS18_RING_C164-193 aa
PF05883Baculo_RING164-207 aa
PF13639zf-RING_2165-207 aa
PF13923zf-C3HC4_2165-206 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA03G482060PF11789zf-Nse1612060.05414.1
TkA03G482060PF14446Prok-RING_11622030.1612.8
TkA03G482060PF13920zf-C3HC4_31632078.1e-0523.1
TkA03G482060PF17120zf-RING_161632050.0006619.9
TkA03G482060PF26148VPS18_RING_C1641930.01616.0
TkA03G482060PF05883Baculo_RING1642070.06613.9
TkA03G482060PF13639zf-RING_21652072.2e-1454.1
TkA03G482060PF13923zf-C3HC4_21652061.2e-0938.5
TkA03G482060PF12678zf-rbx11652077.7e-0833.2
TkA03G482060PF14634zf-RING_51652073.7e-0627.5
TkA03G482060PF23555zf-RING_Vps411651937.76.9
TkA03G482060PF17123zf-RING_111661932.2e-1040.8
TkA03G482060PF00097zf-C3HC41662062.9e-0834.2
TkA03G482060PF13445zf-RING_UBOX1662041.2e-0629.2
TkA03G482060PF00628PHD1661980.0414.7
TkA03G482060PF14447Prok-RING_41662070.05814.0

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
Q8LPN7Arabidopsis thalianasp|Q8LPN7|RNG1L_ARATH E3 ubiquitin-protein ligase RING1-like47.700%Swiss-ProtLow

JBrowse

View in Genome Browser