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

TkA05G116880
Reference: TK1151 Chr: Chr05 Coordinates: 31166152-31167120 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

893 bp · TkA05G116880|TK1151|cDNA

TTTGGCTCGATCCTCAAAACCCTATTTTTTCAGTGGTTTACAGGTGCCTGAAATTATGTCCGGTTTCCAGGATCGACACGACGATGATGATTCGCCATTTTGGCCTCCTGGGAACTCAACCGATGCCAATAGTACATGCTCCGCCGCCAAGCCCACCACCGAGCAGCTCTACGAGGTATAGGAATCGTAGCCCGGATCGACTCAGATGACCCACCGAAAAGAGGTCTTGAGCCCACTGTTATCGCTTCCCTCCCTATGCT...

CDS

Download CDS FASTA

618 bp · TkA05G116880|TK1151|CDS

ATGCTCCGCCGCCAAGCCCACCACCGAGCAGCTCTACGAGGTATAGGAATCGTAGCCCGGATCGACTCAGATGACCCACCGAAAAGAGGTCTTGAGCCCACTGTTATCGCTTCCCTCCCTATGCTGATGTATAAGGACGTCGATCACAAACTGGACCATAATTCCGGCGACCAGAGCCCTGAATGCACTGTTTGTTTAAGCACGTTCGAGGGTGGTCAGATGATTAGGGTTTTACCCAGCTGTAAGCACCATTTTCATGC...

Protein

Download Protein FASTA

205 aa · TkA05G116880|TK1151|PROTEIN

MLRRQAHHRAALRGIGIVARIDSDDPPKRGLEPTVIASLPMLMYKDVDHKLDHNSGDQSPECTVCLSTFEGGQMIRVLPSCKHHFHAECIDKWLGSQSSCPVCRHEVIEAGGDFSSVMPLPREPSTRVGLGLGLGLLPASAPPLERPGSVAIAVEGTSDQMVQSSEKVNGTNSRLSSFRRMLSMDRSSRRVNSCTQDGNEDLERQ

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 IDTkA05G116880
TK1151 IDTkA05G116880
OH-1004 IDLXL04_020004
Relationship / confidenceRbh Sequence Supported / Probable
Protein identity (%)98.000
Protein coverage (%)TK1151 100.000 / OH-1004 79.767
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 IDTkA05G116880
LocationChr05:31166152-31167120 (-)
DescriptionSimilar to ATL41: E3 ubiquitin-protein ligase ATL41
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At2g42360 E3 ubiquitin-protein ligase able to catalyze polyubiquitination with ubiquitin-conjugating enzyme E2 UBC8, UBC10, UBC11, UBC28, UBC29, UBC30, UBC35 and UBC36 in vitro. No verified direct reference in this release
At2g42350 RING-H2 finger protein ATL40. No verified direct reference in this release
At4g09130 Putative RING-H2 finger protein ATL37. No verified direct reference in this release
At3g11110 RING-H2 finger protein ATL66. No verified direct reference in this release
At3g14320 Putative RING-H2 finger protein ATL61. 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_020004 · 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:0006952 defense response Biological Process
GO:0009909 regulation of flower development Biological Process
GO:0010966 regulation of phosphate transport Biological Process
GO:0016567 protein ubiquitination Biological Process
GO:0065003 protein-containing complex assembly Biological Process
GO:0070417 cellular response to cold Biological Process
GO:0005634 nucleus Cellular Component
GO:0005886 plasma membrane 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
KEGG gene cross-reference
ath:AT1G20823
ath:AT2G42350
ath:AT2G42360
ath:AT3G16720
ath:AT3G62690
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.

Cytoplasm0.428
Rank 1 · TkA05G116880 · TK1151
Nucleus0.267
Rank 2 · TkA05G116880 · TK1151
Cell membrane0.256
Rank 3 · TkA05G116880 · TK1151
Golgi apparatus0.135
Rank 4 · TkA05G116880 · TK1151
Lysosome / Vacuole0.121
Rank 5 · TkA05G116880 · 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.

PF29721TMEM129_C53-83 aa
PF13920zf-C3HC4_360-108 aa
PF13639zf-RING_261-104 aa
PF17123zf-RING_1161-90 aa
PF13923zf-C3HC4_261-103 aa
PF14634zf-RING_561-105 aa
PF14446Prok-RING_161-92 aa
PF17120zf-RING_1661-102 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA05G116880PF29721TMEM129_C53830.3412.0
TkA05G116880PF13920zf-C3HC4_3601080.0002321.6
TkA05G116880PF13639zf-RING_2611042.4e-1557.2
TkA05G116880PF17123zf-RING_1161908.1e-1142.1
TkA05G116880PF13923zf-C3HC4_2611031.4e-0938.3
TkA05G116880PF14634zf-RING_5611053.3e-0524.5
TkA05G116880PF14446Prok-RING_161920.0001322.7
TkA05G116880PF17120zf-RING_16611020.01216.0
TkA05G116880PF11793FANCL_C61980.02815.4
TkA05G116880PF21349RUBY_RBDX61830.112.8
TkA05G116880PF22191IBR_161950.8710.2
TkA05G116880PF21202SLX1_C611050.8910.6
TkA05G116880PF13445zf-RING_UBOX621017.8e-0626.5
TkA05G116880PF00097zf-C3HC4621038.3e-0626.3
TkA05G116880PF14447Prok-RING_4621070.005517.3
TkA05G116880PF00628PHD62930.1812.5

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
Q9SLC3Arabidopsis thalianasp|Q9SLC3|ATL41_ARATH E3 ubiquitin-protein ligase ATL4140.200%Swiss-ProtMedium
Q9SLC4Arabidopsis thalianasp|Q9SLC4|ATL40_ARATH RING-H2 finger protein ATL4039.900%Swiss-ProtMedium
Q9M0R4Arabidopsis thalianasp|Q9M0R4|ATL37_ARATH Putative RING-H2 finger protein ATL3743.000%Swiss-ProtLow
Q9SRM0Arabidopsis thalianasp|Q9SRM0|ATL66_ARATH RING-H2 finger protein ATL6641.300%Swiss-ProtLow
Q9LUL6Arabidopsis thalianasp|Q9LUL6|ATL61_ARATH Putative RING-H2 finger protein ATL6146.200%Swiss-ProtLow

JBrowse

View in Genome Browser