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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

TkA04G019780
Reference: TK1151 Chr: Chr04 Coordinates: 4951058-4954374 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2656 bp · TkA04G019780|TK1151|cDNA

ATTCAAGATAAAGTTTTCCACCTTTATTCTTCCTTTTAATACTATTTATGCATAATCAATTAACCAAAATTAGCACCAAATCAATATTCAATTAAATCGCCAACAAACCCTGCAACTATCTTCAGCTACGGACCCACCCTTTTAACCCCTTTCTCCTTTTCCCCTTCTTCTCTATTATTCTCATGATTCACTCTTCCAAGTGTTGGCGAAAATTCATATACCCTGATGGATGTTTCATCCTAAAGATTATTCCTTTGAGG...

CDS

Download CDS FASTA

2067 bp · TkA04G019780|TK1151|CDS

ATGGGTGCAGAACAGATGTTAAGATGTTTAAGTAACAGCTTTTCTCGATTCATTCATATTGCCACATTTGGTGTACCCAACAACTTGCCATGTCAGAAGGAATACAAAGACATTGCTGGTTCTTTGAAGCTTTTTAAACGAATTCTTGACAACATTGATGATTCCCAAATCCATTCAGATGAAATTCTACAAAAAATGTTTGAAGAACTTGATGTTGCTGTAAATGAGGTCCGAGAGTTCATTGAAAATTGGGGGTTTCA...

Protein

Download Protein FASTA

688 aa · TkA04G019780|TK1151|PROTEIN

MGAEQMLRCLSNSFSRFIHIATFGVPNNLPCQKEYKDIAGSLKLFKRILDNIDDSQIHSDEILQKMFEELDVAVNEVREFIENWGFHSSKIYGVVESRQLIVKIKNYSIKICETVIRSLDSSSSSSSSSSSSPSTSTLADIQNCMEELERVKLEIASEKVEESMKFIREGKVPPLEILTVIIDLLHLSSSQELLKETIAVEKETMRVDQSNQVNHVVDLISHIRETMVNLESSKTINGVSVSVPSYFICPLSLQLMFDPV...

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 IDTkA04G019780
TK1151 IDTkA04G019780
OH-1004 IDLXL04_006739
Relationship / confidenceNon Reciprocal Best Hit / Complex relationship
Protein identity (%)43.900
Protein coverage (%)TK1151 98.983 / OH-1004 82.893
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 IDTkA04G019780
LocationChr04:4951058-4954374 (+)
DescriptionSimilar to PUB2: U-box domain-containing protein 2
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At3g54790 Functions as an E3 ubiquitin ligase. No verified direct reference in this release
At2g23140 Functions as an E3 ubiquitin ligase. No verified direct reference in this release
At5g67340 Functions as an E3 ubiquitin ligase. No verified direct reference in this release
At3g54850 Functions as an E3 ubiquitin ligase with specific E2 ubiquitin-conjugating enzymes.
Structure and biochemical function of a prototypical Arabidopsis U-box domain.2004 · DOI: 10.1074/jbc.m405057200

Rice

Reference gene IDPossible functionPapers / DOI
Os06g0102700 Possesses E3 ubiquitin-protein ligase in vitro. No verified direct reference in this release
Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_006739 · 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:0007166 cell surface receptor signaling pathway Biological Process
GO:0016567 protein ubiquitination Biological Process
GO:0034614 cellular response to reactive oxygen species Biological Process
GO:0042742 defense response to bacterium Biological Process
GO:0048364 root development Biological Process
GO:0048658 anther wall tapetum development Biological Process
GO:0050777 negative regulation of immune response Biological Process
GO:1904821 chloroplast disassembly Biological Process
GO:2000028 regulation of photoperiodism, flowering Biological Process
GO:0005634 nucleus Cellular Component
GO:0005737 cytoplasm Cellular Component
GO:0005829 cytosol Cellular Component
KEGG gene cross-reference
ath:AT2G23140
ath:AT3G46510
ath:AT3G54790
ath:AT5G67340
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.

Cytoplasm0.563
Rank 1 · TkA04G019780 · TK1151
Nucleus0.346
Rank 2 · TkA04G019780 · TK1151
Cell membrane0.183
Rank 3 · TkA04G019780 · TK1151
Lysosome / Vacuole0.055
Rank 4 · TkA04G019780 · TK1151
Endoplasmic reticulum0.053
Rank 5 · TkA04G019780 · 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.

PF25240PUB2_N5-130 aa
PF05804KAP87-123 aa
PF30700ARM_GAC_1st135-209 aa
PF25598ARM_PUB175-225 aa
PF28415SIL1_FES1_HPBP1_C177-216 aa
PF00514Arm178-196 aa
PF25240PUB2_N178-198 aa
PF24768ARM_ARMC5190-190 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA04G019780PF25240PUB2_N51301.3e-35123.2
TkA04G019780PF05804KAP871230.009614.9
TkA04G019780PF30700ARM_GAC_1st1352090.004515.0
TkA04G019780PF25598ARM_PUB1752252e-2590.6
TkA04G019780PF28415SIL1_FES1_HPBP1_C1772160.4110.8
TkA04G019780PF00514Arm1781961.4e-37127.2
TkA04G019780PF25240PUB2_N1781981.3e-35123.2
TkA04G019780PF24768ARM_ARMC51901907.3e-1969.0
TkA04G019780PF04208MtrA2072280.1312.7
TkA04G019780PF04564U-box2433131.4e-2280.4
TkA04G019780PF11789zf-Nse2482860.001519.0
TkA04G019780PF13445zf-RING_UBOX2492850.1512.8
TkA04G019780PF13445zf-RING_UBOX3353430.1512.8
TkA04G019780PF24768ARM_ARMC53975787.3e-1969.0
TkA04G019780PF23628ARM_LIN_C3985160.000719.4
TkA04G019780PF05804KAP4005170.009614.9

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
Q8GWV5Arabidopsis thalianasp|Q8GWV5|PUB3_ARATH U-box domain-containing protein 344.900%Swiss-ProtMedium
O22193Arabidopsis thalianasp|O22193|PUB4_ARATH U-box domain-containing protein 441.200%Swiss-ProtMedium
Q5XEZ8Arabidopsis thalianasp|Q5XEZ8|PUB2_ARATH U-box domain-containing protein 241.700%Swiss-ProtMedium
Q8VZ40Arabidopsis thalianasp|Q8VZ40|PUB14_ARATH U-box domain-containing protein 1447.500%Swiss-ProtMedium
Q5VRH9Oryza sativa subsp. japonicasp|Q5VRH9|PUB12_ORYSJ U-box domain-containing protein 1247.800%Swiss-ProtMedium

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