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

TkA07G425000
Reference: TK1151 Chr: Chr07 Coordinates: 107458985-107461768 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1462 bp · TkA07G425000|TK1151|cDNA

AGAAAGCCCAAATATTTGCACCGGTTATTCGTCATTCATCAGTCGTCATCTTCCCGGAAATCCTGTTCACAAAAATAACTTTTTCATTACAAAAAAGAAAAAATTAATAAATTTCACCAAATTGACCATCACCATTTTCGACTCTTTCTCCTCTCTCTCACACACACTACTGTGTGCGTTACTCTCTTCTTCCCTCCCTCTGTCAGTCGTTCATAACCAACTCAAGCCTAGGGTTTTCTCCAAGTAGCTCCTTTCCTCTT...

CDS

Download CDS FASTA

1098 bp · TkA07G425000|TK1151|CDS

ATGGCGATCACAGGCGCAGGTTTTAAGTGGTACGATGGATTCTTTCTATCAATGCTAGCGTTCAGCATCGTCATGGTCGGCTTGAGTTGGAACCGTTACCATCTCTGTAAATTACCATTACACCTCTGGATATCGGTCGATTACGCCGCGGTGTTTGTTTTCCGCCTCTTGATGTTCGTGGACAATGCGATTGCAGCTCAAGTCCGATTGGATTTTGGCCGACAACTAAGCGGCGGTAATCTTTTTGGAAGAATTGTTGT...

Protein

Download Protein FASTA

365 aa · TkA07G425000|TK1151|PROTEIN

MAITGAGFKWYDGFFLSMLAFSIVMVGLSWNRYHLCKLPLHLWISVDYAAVFVFRLLMFVDNAIAAQVRLDFGRQLSGGNLFGRIVVLSILYAILYPFLWAWTFVGTVWFAGARNCLPEKNQKWGFLVWLLFSFCGLICLAGNFGKKWLTRRQAHLRRVPHGTRISEYRVLLNMIRQPDWVFEPTGQEMRGFDFDQDAAPYNLGTDLSESQRAAVETAIQRLPVFILKAVPTDCSDCPICLEEFRVGQGVRGLPCAHNFH...

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 IDTkA07G425000
TK1151 IDTkA07G425000
OH-1004 IDLXL04_030709
Relationship / confidenceNon Reciprocal Best Hit / Complex relationship
Protein identity (%)64.200
Protein coverage (%)TK1151 87.945 / OH-1004 88.556
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 IDTkA07G425000
LocationChr07:107458985-107461768 (+)
DescriptionSimilar to SIS3: E3 ubiquitin-protein ligase SIS3
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At3g47990 E3 ubiquitin protein ligase that acts as a positive regulator of sugar signaling during early seedling development.
SUGAR-INSENSITIVE3, a RING E3 ligase, is a new player in plant sugar response.2010 · DOI: 10.1104/pp.109.150573

Rice

No hit for this species in the current source table.

Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_030709 · 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:0009416 response to light stimulus Biological Process
GO:0009788 negative regulation of abscisic acid-activated signaling pathway Biological Process
GO:0010182 sugar mediated signaling pathway Biological Process
GO:0016567 protein ubiquitination Biological Process
GO:0005634 nucleus Cellular Component
GO:0005739 mitochondrion Cellular Component
GO:0005886 plasma membrane Cellular Component
GO:0009507 chloroplast Cellular Component
GO:0009535 chloroplast thylakoid membrane Cellular Component
GO:0016020 membrane Cellular Component
GO:0031982 vesicle Cellular Component
KEGG gene cross-reference
ath:AT2G17730
ath:AT2G35910
ath:AT3G18930
ath:AT3G47990
ath:AT5G66070
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.

Endoplasmic reticulum0.262
Rank 1 · TkA07G425000 · TK1151
Golgi apparatus0.258
Rank 2 · TkA07G425000 · TK1151
Lysosome / Vacuole0.245
Rank 3 · TkA07G425000 · TK1151
Cytoplasm0.242
Rank 4 · TkA07G425000 · TK1151
Cell membrane0.189
Rank 5 · TkA07G425000 · 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.

PF26753SIS3_N11-160 aa
PF19865DUF633872-159 aa
PF13445zf-RING_UBOX114-122 aa
PF13639zf-RING_2236-278 aa
PF17123zf-RING_11236-264 aa
PF14634zf-RING_5236-278 aa
PF13920zf-C3HC4_3236-280 aa
PF13923zf-C3HC4_2237-277 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA07G425000PF26753SIS3_N111602.1e-62210.1
TkA07G425000PF19865DUF6338721590.2111.8
TkA07G425000PF13445zf-RING_UBOX1141227.5e-0729.8
TkA07G425000PF13639zf-RING_22362783.5e-1453.5
TkA07G425000PF17123zf-RING_112362642.1e-1144.0
TkA07G425000PF14634zf-RING_52362780.0003721.1
TkA07G425000PF13920zf-C3HC4_32362801.19.8
TkA07G425000PF13923zf-C3HC4_22372771.3e-0835.2
TkA07G425000PF00097zf-C3HC42372774e-0833.7
TkA07G425000PF13445zf-RING_UBOX2372757.5e-0729.8
TkA07G425000PF08746zf-RING-like2372770.01716.0
TkA07G425000PF11793FANCL_C2372740.7410.9
TkA07G425000PF12861zf-ANAPC112502800.005217.5
TkA07G425000PF12678zf-rbx12542781e-0526.4

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
Q8GYT9Arabidopsis thalianasp|Q8GYT9|SIS3_ARATH E3 ubiquitin-protein ligase SIS356.100%Swiss-ProtHigh

JBrowse

View in Genome Browser