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

TkA03G190280
Reference: TK1151 Chr: Chr03 Coordinates: 47884523-47885446 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

897 bp · TkA03G190280|TK1151|cDNA

CTAAACAACCTATTGATTAATTTTCTCAAACAACTAAACATGTCAAGGCAATATACTGAGCTCTTTCACGATAAATTGGGTCAAGTAAGTTCAAGAAAGCTTTTACTTCACACTTATTCATACCAACAATCCGTAGCTGTGGTGACAGCTCCCTCACCATCAACCCCATATACAGAACATAGCAAATTTGATGCGAATGTGGTGATGGTGCTTTCGGTACTTATATGTGCTCTAATTTGTTCACTAGGGTTGAACTCCAT...

CDS

Download CDS FASTA

663 bp · TkA03G190280|TK1151|CDS

ATGTCAAGGCAATATACTGAGCTCTTTCACGATAAATTGGGTCAAGTAAGTTCAAGAAAGCTTTTACTTCACACTTATTCATACCAACAATCCGTAGCTGTGGTGACAGCTCCCTCACCATCAACCCCATATACAGAACATAGCAAATTTGATGCGAATGTGGTGATGGTGCTTTCGGTACTTATATGTGCTCTAATTTGTTCACTAGGGTTGAACTCCATCATTAGATGTGTTTTAAGATGCACATCCTTGGGTGGTTC...

Protein

Download Protein FASTA

220 aa · TkA03G190280|TK1151|PROTEIN

MSRQYTELFHDKLGQVSSRKLLLHTYSYQQSVAVVTAPSPSTPYTEHSKFDANVVMVLSVLICALICSLGLNSIIRCVLRCTSLGGSQSSDNQEINSAKLASTGIKKKALKTFPTVTYTEGLKLPGLDNECVICLGDFGKGERVKILPKCNHGFHVKCIDKWLSSHSSCPTCRNSLLETCQKIVTGGSCSSTTSEQGPRNTPILTIVPLQHEGVLRNFET

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 IDTkA03G190280
TK1151 IDTkA03G190280
OH-1004 IDLXL04_007567
Relationship / confidenceMulti Source To Oh1004 / Complex relationship
Protein identity (%)93.200
Protein coverage (%)TK1151 99.545 / OH-1004 99.545
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 IDTkA03G190280
LocationChr03:47884523-47885446 (+)
DescriptionSimilar to ATL78: RING-H2 finger protein ATL78
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At1g49230 RING-H2 finger protein ATL78. No verified direct reference in this release
At1g49220 RING-H2 finger protein ATL10. No verified direct reference in this release
At1g49210 E3 ubiquitin-protein ligase able to catalyze polyubiquitination with ubiquitin-conjugating enzyme E2 UBC8 in vitro. No verified direct reference in this release
At1g49200 RING-H2 finger protein ATL75. No verified direct reference in this release
At3g18773 RING-H2 finger protein ATL77. 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_007567 · 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:0009409 response to cold Biological Process
GO:0009414 response to water deprivation Biological Process
GO:0016567 protein ubiquitination Biological Process
GO:0005886 plasma membrane 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:AT1G49200
ath:AT1G49210
ath:AT1G49220
ath:AT1G49230
ath:AT3G18773
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.

Cell membrane0.317
Rank 1 · TkA03G190280 · TK1151
Endoplasmic reticulum0.260
Rank 2 · TkA03G190280 · TK1151
Lysosome / Vacuole0.259
Rank 3 · TkA03G190280 · TK1151
Cytoplasm0.198
Rank 4 · TkA03G190280 · TK1151
Golgi apparatus0.150
Rank 5 · TkA03G190280 · 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-rbx167-83 aa
PF13920zf-C3HC4_3128-175 aa
PF13639zf-RING_2129-173 aa
PF17123zf-RING_11130-159 aa
PF13923zf-C3HC4_2130-172 aa
PF14634zf-RING_5130-173 aa
PF23413zf_RING_Vps8_fungal130-134 aa
PF11793FANCL_C130-177 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA03G190280PF12678zf-rbx167839e-0936.2
TkA03G190280PF13920zf-C3HC4_31281750.0004120.8
TkA03G190280PF13639zf-RING_21291736.8e-1659.0
TkA03G190280PF17123zf-RING_111301592.1e-1247.2
TkA03G190280PF13923zf-C3HC4_21301721.1e-0938.6
TkA03G190280PF14634zf-RING_51301730.0001222.7
TkA03G190280PF23413zf_RING_Vps8_fungal1301340.00119.0
TkA03G190280PF11793FANCL_C1301770.03615.1
TkA03G190280PF17120zf-RING_161301710.1112.8
TkA03G190280PF29721TMEM129_C1301520.2212.6
TkA03G190280PF14446Prok-RING_11301611.310.0
TkA03G190280PF00097zf-C3HC41311722.9e-0627.7
TkA03G190280PF13445zf-RING_UBOX1311700.03914.7
TkA03G190280PF14570zf-RING_41311740.1212.9
TkA03G190280PF12678zf-rbx11431739e-0936.2
TkA03G190280PF12861zf-ANAPC111461763.7e-0524.4

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
Q6NQG7Arabidopsis thalianasp|Q6NQG7|ATL78_ARATH RING-H2 finger protein ATL7855.600%Swiss-ProtHigh
P0C034Arabidopsis thalianasp|P0C034|ATL10_ARATH RING-H2 finger protein ATL1049.300%Swiss-ProtMedium
Q6NML0Arabidopsis thalianasp|Q6NML0|ATL76_ARATH E3 ubiquitin-protein ligase ATL7645.400%Swiss-ProtMedium
Q94BY6Arabidopsis thalianasp|Q94BY6|ATL75_ARATH RING-H2 finger protein ATL7546.500%Swiss-ProtMedium
Q9LS99Arabidopsis thalianasp|Q9LS99|ATL77_ARATH RING-H2 finger protein ATL7742.400%Swiss-ProtMedium

JBrowse

View in Genome Browser