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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

TkA02G552960
Reference: TK1151 Chr: Chr02 Coordinates: 142685323-142689107 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2694 bp · TkA02G552960|TK1151|cDNA

ATAAAAGTAAACACCCGCACCACTCACTAGTGACTAGATCCTCTCAGATACAAAACCAAAAAACCCATCAAAGGTCAACAACCTCCTCCAAAAAAAGAAACCAGAAAAAGAAAAAGAAAGAGAAAGAGAAGAGCCTTCATCTCTCTCTCTCTACTCCACGGAAGTTCAATTAATGGCCGCCTGGCGCCAGTAGCAAGAGTAAACGCTCAATCTACAACCTACCCATCATCATTAAAACTGTAGAAATCCCCATCTTTCTT...

CDS

Download CDS FASTA

1326 bp · TkA02G552960|TK1151|CDS

ATGGGGAGTAAATGGAGGAAAGTGAAGATGGCTTTGGCTTCTAATTTGTGTGTTTATGTGCCCACGGTTGATGCAGACGATTCTCCACCGCAGTCCGATGGATTTTCCGATGCAGCCTTGTTATCTCCCTCTCCGGCGGGTTGGAGCATGGGCGGCTCCGCTACTCGTCCGGCGTCACCCAGTTTACGATTGTCTAAAAGCTTCAACAGATCTTCCAAGAAAACATGTACGATATGTTTAGCGTCGATGAAAAGGGGAGA...

Protein

Download Protein FASTA

441 aa · TkA02G552960|TK1151|PROTEIN

MGSKWRKVKMALASNLCVYVPTVDADDSPPQSDGFSDAALLSPSPAGWSMGGSATRPASPSLRLSKSFNRSSKKTCTICLASMKRGEGQAIFTAECSHSFHFHCIASNVKHGNQICPVCRAKWKEVPLQGPTNSNPPLGRTRINPVNWSNDNPVMTLLRPIPPRPNSPRHVTAPIFPGPEPPVFNDDEPLNLKLSTKIPSDNNSNLKKVSVKCYTEVPAVPRLTAVDDFTVLIHLKAPASVSGVKLNQGGPTFSQVYQTP...

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.

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ID Mapping

Input IDTkA02G552960
TK1151 IDTkA02G552960
OH-1004 IDLXL04_012566
Relationship / confidenceRbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)98.200
Protein coverage (%)TK1151 99.320 / OH-1004 61.088
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 IDTkA02G552960
LocationChr02:142685323-142689107 (+)
DescriptionSimilar to WAV3: E3 ubiquitin-protein ligase WAV3
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At5g49665 E3 ubiquitin-protein ligase involved in the regulation of root growth.
The wavy growth 3 E3 ligase family controls the gravitropic response in Arabidopsis roots.2012 · DOI: 10.1111/j.1365-313x.2011.04870.x
At4g37890 Probable E3 ubiquitin-protein ligase involved in female gametophyte development. No verified direct reference in this release
At2g22680 E3 ubiquitin-protein ligase involved in the regulation of root growth.
The wavy growth 3 E3 ligase family controls the gravitropic response in Arabidopsis roots.2012 · DOI: 10.1111/j.1365-313x.2011.04870.x
At5g65683 Probable E3 ubiquitin-protein ligase involved in the regulation of root growth.
The wavy growth 3 E3 ligase family controls the gravitropic response in Arabidopsis roots.2012 · DOI: 10.1111/j.1365-313x.2011.04870.x

Rice

No hit for this species in the current source table.

Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_012566 · 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:0009630 gravitropism Biological Process
GO:0010197 polar nucleus fusion Biological Process
GO:0010274 hydrotropism Biological Process
GO:0016567 protein ubiquitination Biological Process
GO:0048364 root development Biological Process
GO:0005576 extracellular region Cellular Component
GO:0005634 nucleus Cellular Component
GO:0009506 plasmodesma Cellular Component
GO:0008270 zinc ion binding Molecular Function
GO:0061630 ubiquitin protein ligase activity Molecular Function
KEGG gene cross-reference
ath:AT2G22680
ath:AT4G37890
ath:AT5G49665
ath:AT5G65683
syn:sll0103
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 membrane0.360
Rank 1 · TkA02G552960 · TK1151
Nucleus0.290
Rank 2 · TkA02G552960 · TK1151
Cytoplasm0.204
Rank 3 · TkA02G552960 · TK1151
Plastid0.111
Rank 4 · TkA02G552960 · TK1151
Endoplasmic reticulum0.093
Rank 5 · TkA02G552960 · 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.

PF13771zf-HC5HC2H63-108 aa
PF13832zf-HC5HC2H_265-107 aa
PF14569zf-UDP66-125 aa
PF08746zf-RING-like68-79 aa
PF17120zf-RING_1672-118 aa
PF12678zf-rbx173-120 aa
PF29452FAR1_N73-120 aa
PF13920zf-C3HC4_373-125 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA02G552960PF13771zf-HC5HC2H631080.04114.8
TkA02G552960PF13832zf-HC5HC2H_2651070.07613.9
TkA02G552960PF14569zf-UDP661256.4e-0523.6
TkA02G552960PF08746zf-RING-like68792.69.0
TkA02G552960PF17120zf-RING_16721181.29.6
TkA02G552960PF12678zf-rbx1731207.8e-0833.2
TkA02G552960PF29452FAR1_N731200.01915.7
TkA02G552960PF13920zf-C3HC4_3731250.1612.5
TkA02G552960PF13639zf-RING_2751209.2e-0936.1
TkA02G552960PF21202SLX1_C751170.3312.0
TkA02G552960PF25998U-box_ZFPL1751140.6611.1
TkA02G552960PF17123zf-RING_11761051.5e-0938.1
TkA02G552960PF00097zf-C3HC4761191.1e-0629.1
TkA02G552960PF13923zf-C3HC4_2761192.4e-0524.8
TkA02G552960PF13445zf-RING_UBOX761170.0001422.4
TkA02G552960PF14570zf-RING_4761230.0006720.1

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
Q9LTA6Arabidopsis thalianasp|Q9LTA6|WAV3_ARATH E3 ubiquitin-protein ligase WAV334.800%Swiss-ProtMedium
F4JSV3Arabidopsis thalianasp|F4JSV3|EDA40_ARATH Probable E3 ubiquitin-protein ligase EDA4031.400%Swiss-ProtMedium
Q9ZQ46Arabidopsis thalianasp|Q9ZQ46|WAVH1_ARATH E3 ubiquitin-protein ligase WAVH133.100%Swiss-ProtMedium
Q0WQX9Arabidopsis thalianasp|Q0WQX9|WAVH2_ARATH Probable E3 ubiquitin-protein ligase WAVH231.900%Swiss-ProtMedium

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