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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

TkA04G109770
Reference: TK1151 Chr: Chr04 Coordinates: 28528350-28531971 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

3014 bp · TkA04G109770|TK1151|cDNA

CCTGTGTCCAGACTCCAGAGTCTAACTTAGACAGCTAGTGTGATCTATCTCTATCTTTCTCCCTAGAATTGCGCTTGTAACACTCGAAGTAATTTATCTATTACTTTTCGGAATTTGTCACCTTCTTCCAGTTTTCTATCTACTGGTAGATTCTGAAAAACGAACCCTAGATAATTTCTTTTTATAGATTGGTGTTGATGACTGCCGCAGATAAAACGGATCGAGTTATGCAGAATCTTAAGTATTTCTGCTTGAATCCA...

CDS

Download CDS FASTA

2430 bp · TkA04G109770|TK1151|CDS

ATGTCGGTAAGCCGGAATGGAAGTCGTGACCTTGGTAGCCAATCAGACGACAGCTTCCAATACGAAAGACCACACGTAGAGCCAATTTACGACACATTCATCTGCCCTCTTTCAAAACAAATCATGAGAAACCCAGTCACGATTGAAAACGGGCAAACATTTGAGCGAGAAGCCATTGAGAAATGGTTCAATGAATGCAAGGAGAACGGAAGAAAGCTGACGTGTCCCTTAACATTAAAAGAACTAAAAACAACAGACAT...

Protein

Download Protein FASTA

809 aa · TkA04G109770|TK1151|PROTEIN

MSVSRNGSRDLGSQSDDSFQYERPHVEPIYDTFICPLSKQIMRNPVTIENGQTFEREAIEKWFNECKENGRKLTCPLTLKELKTTDMNPSIALRNTIEEWSARNEAVQLDMASKSLSPGSSESDSLHALKFIQQLCTKNLSSKNIIRNADLIPMIVEMLKSTSRKVRCIAFETLRVVVEDDDDNKEIMAEGDKVRTIVKFLNHEQSQEREEAVSLLYELSKSEALCEKIGSVNGAILILVGMTSSKSENLLIVEKAEKVL...

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 IDTkA04G109770
TK1151 IDTkA04G109770
OH-1004 IDLXL04_035767
Relationship / confidenceMulti Source To Oh1004 / Complex relationship
Protein identity (%)99.300
Protein coverage (%)TK1151 100.000 / OH-1004 100.000
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 IDTkA04G109770
LocationChr04:28528350-28531971 (-)
DescriptionSimilar to PUB43: U-box domain-containing protein 43
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At1g76390 Functions as an E3 ubiquitin ligase. No verified direct reference in this release
At1g20780 Functions as an E3 ubiquitin-protein ligase.
Identification of a novel E3 ubiquitin ligase that is required for suppression of premature senescence in Arabidopsis.2009 · DOI: 10.1111/j.1365-313x.2009.03846.x
At1g68940 Functions as an E3 ubiquitin ligase. No verified direct reference in this release
At5g42340 Functions as an E3 ubiquitin ligase. No verified direct reference in this release

Rice

Reference gene IDPossible functionPapers / DOI
Os03g0657100 E3 ubiquitin-protein ligase that functions as a negative regulator of brassinosteroid (BR) signaling.
OsBZR1 turnover mediated by OsSK22-regulated U-box E3 ligase OsPUB24 in rice BR response.2019 · DOI: 10.1111/tpj.14332
Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_035767 · 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:0006970 response to osmotic stress Biological Process
GO:0007166 cell surface receptor signaling pathway Biological Process
GO:0009742 brassinosteroid mediated signaling pathway Biological Process
GO:0010115 regulation of abscisic acid biosynthetic process Biological Process
GO:0010150 leaf senescence Biological Process
GO:0010271 regulation of chlorophyll catabolic process Biological Process
GO:0010380 regulation of chlorophyll biosynthetic process Biological Process
GO:0016567 protein ubiquitination Biological Process
GO:0090359 negative regulation of abscisic acid biosynthetic process Biological Process
GO:0005634 nucleus Cellular Component
GO:0005737 cytoplasm Cellular Component
GO:0005739 mitochondrion Cellular Component
KEGG gene cross-reference
ath:AT1G20780
ath:AT1G76390
ath:AT5G42340
dosa:Os03g0657100
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.

Cytoplasm0.497
Rank 1 · TkA04G109770 · TK1151
Nucleus0.367
Rank 2 · TkA04G109770 · TK1151
Cell membrane0.204
Rank 3 · TkA04G109770 · TK1151
Endoplasmic reticulum0.057
Rank 4 · TkA04G109770 · TK1151
Golgi apparatus0.056
Rank 5 · TkA04G109770 · 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.

PF15906zf-NOSIP28-62 aa
PF04564U-box31-105 aa
PF11789zf-Nse34-77 aa
PF13445zf-RING_UBOX35-76 aa
PF15227zf-C3HC4_435-77 aa
PF11789zf-Nse72-83 aa
PF10508Proteasom_PSMB87-229 aa
PF21047HEAT_Maestro91-201 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA04G109770PF15906zf-NOSIP28620.01616.0
TkA04G109770PF04564U-box311053.5e-1453.4
TkA04G109770PF11789zf-Nse34770.000221.8
TkA04G109770PF13445zf-RING_UBOX35760.02415.4
TkA04G109770PF15227zf-C3HC4_435770.09213.6
TkA04G109770PF11789zf-Nse72830.000221.8
TkA04G109770PF10508Proteasom_PSMB872292.27.4
TkA04G109770PF21047HEAT_Maestro912010.2112.1
TkA04G109770PF24768ARM_ARMC51172884.8e-1349.8
TkA04G109770PF25598ARM_PUB1172244.4e-0936.9
TkA04G109770PF23295Arm_41222130.01415.4
TkA04G109770PF04078Rcd11262060.01315.6
TkA04G109770PF08569Mo251281890.04413.8
TkA04G109770PF24959FH3_FHOD1-31411900.1612.4
TkA04G109770PF04826Arm_21421870.002618.0
TkA04G109770PF00514Arm1451753.5e-1246.6

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
Q9SFX2Arabidopsis thalianasp|Q9SFX2|PUB43_ARATH U-box domain-containing protein 4361.300%Swiss-ProtHigh
Q9LM76Arabidopsis thalianasp|Q9LM76|PUB44_ARATH U-box domain-containing protein 4461.100%Swiss-ProtHigh
Q9CAA7Arabidopsis thalianasp|Q9CAA7|PUB42_ARATH Putative U-box domain-containing protein 4234.400%Swiss-ProtMedium
Q681N2Arabidopsis thalianasp|Q681N2|PUB15_ARATH U-box domain-containing protein 1528.300%Swiss-ProtLow
Q10FT0Oryza sativa subsp. japonicasp|Q10FT0|PUB24_ORYSJ U-box domain-containing protein 2450.800%Swiss-ProtHigh

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