TkA06G018870 | RubberDandelionOmics

Gene overview

TkA06G018870

Reference: TK1151 Chr: Chr06 Coordinates: 5153836-5159105 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

3585 bp · TkA06G018870|TK1151|cDNA

CAATAAAATAGTTAAGTGGTACCAAATCGATAAATACATAATTTTGGTTGAAACAATTACTAAAGCTTGGAATAATGTCTTGATGTCCCCTAATAATATCGATATCAACAACGTAAACAAAGAGGTATAAGGTGCATGGACCATGTTGATACACAAAAAGACATATTAACCTGACCGCAAATAAACCAAAGTTGAATTGGAGCCATGGTAAGTTTAAATCCATAGATTAACGAAGCCTAGTTGTTGTTCCATAATAATAG...

CDS

Download CDS FASTA

2751 bp · TkA06G018870|TK1151|CDS

ATGACGATTGCTGATTCCGGTGCCCTAATGGATAACGAATCACTATGCTTGCCGTGCACTCCAGAGGAAGAGAGAAGGATTGTCAAGGAGTTAACGGAGAAGGCCGATTCATGTTTGAAAGAAGGCAACTTATATTATGTCGTCTCCAACAGGTGGTATACAAAATGGCAGAAATATGTTGGTCAGTTGGAAGACCTTTCTAATGATAAACAGCCGACACCATTGACAAATCCAGGAGAGAAACCAGGACCAATTGATAA...

Protein

Download Protein FASTA

916 aa · TkA06G018870|TK1151|PROTEIN

MTIADSGALMDNESLCLPCTPEEERRIVKELTEKADSCLKEGNLYYVVSNRWYTKWQKYVGQLEDLSNDKQPTPLTNPGEKPGPIDNSDIVTNGGGHDGTGLQLPKTLYEGDDYVLVPQGVWDKLHGWYKGGPALPRKMISVGRNGMFSVEVFPLSLKLIDSRDKSETIIHITKKASLHDLYKQASELKGVDPRNARIWDYFNDSKQAALSDSNQTLEEANLQMDQSILLEVQVDGFIPSGCGMDSTGNELALVPMEPQR...

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.

ID Mapping

Input ID	`TkA06G018870`
TK1151 ID	TkA06G018870
OH-1004 ID	LXL04_019075
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	46.000
Protein coverage (%)	TK1151 95.415 / OH-1004 71.254 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 version	TK1151 / GWHBCHF00000000

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SNP / Indel variants and carrier samplesCRA009020 · TK1151

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID TkA06G018870

Location Chr06:5153836-5159105 (+)

Description Similar to UBP5: Ubiquitin carboxyl-terminal hydrolase 5

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g10570`	Recognizes and hydrolyzes the peptide bond at the C-terminal Gly of ubiquitin.	No verified direct reference in this release
`At4g10590`	Recognizes and hydrolyzes the peptide bond at the C-terminal Gly of ubiquitin.	No verified direct reference in this release
`At1g32850`	Recognizes and hydrolyzes the peptide bond at the C-terminal Gly of ubiquitin.	No verified direct reference in this release
`At2g40930`	Recognizes and hydrolyzes the peptide bond at the C-terminal Gly of ubiquitin.	Ubiquitin-specific proteases from Arabidopsis thaliana: cloning of AtUBP5 and analysis of substrate specificity of AtUBP3, AtUBP4, and AtUBP5 using Escherichia coli in vivo and in vitro assays.2000 · DOI: 10.1006/abbi.2000.1874
`At5g22030`	Recognizes and hydrolyzes the peptide bond at the C-terminal Gly of ubiquitin.	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_019075 · 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:0006508 proteolysis Biological Process

GO:0006511 ubiquitin-dependent protein catabolic process Biological Process

GO:0007032 endosome organization Biological Process

GO:0007265 Ras protein signal transduction Biological Process

GO:0016579 protein deubiquitination Biological Process

GO:0141137 positive regulation of gene expression, epigenetic Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005829 cytosol Cellular Component

GO:0004843 cysteine-type deubiquitinase activity Molecular Function

GO:0140950 histone H2A deubiquitinase activity Molecular Function

KEGG gene cross-reference

ath:AT1G32850

ath:AT2G40930

ath:AT4G10570

ath:AT4G10590

ath:AT5G22030

These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.

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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.

Nucleus0.535

Rank 1 · TkA06G018870 · TK1151

Cytoplasm0.526

Rank 2 · TkA06G018870 · TK1151

Cell membrane0.069

Rank 3 · TkA06G018870 · TK1151

Mitochondrion0.068

Rank 4 · TkA06G018870 · TK1151

Endoplasmic reticulum0.063

Rank 5 · TkA06G018870 · TK1151

LocPro · Direct prediction · Computational prediction, not experimental localization

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Predicted Functional Domains

Domain results are from Pfam-A/HMMER; positions are amino-acid coordinates on the protein sequence.

PF06337DUSP43-140 aa

PF25242Ubiquitin_UBP8157-201 aa

PF14533USP7_C2165-220 aa

PF14836Ubiquitin_3187-233 aa

PF00443UCH197-216 aa

PF00443UCH313-889 aa

PF13423UCH_1313-492 aa

PF14533USP7_C2488-584 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA06G018870	`PF06337`	DUSP	43	140	4.4e-24	85.4
TkA06G018870	`PF25242`	Ubiquitin_UBP8	157	201	0.036	14.5
TkA06G018870	`PF14533`	USP7_C2	165	220	0.00018	22.0
TkA06G018870	`PF14836`	Ubiquitin_3	187	233	0.0033	18.0
TkA06G018870	`PF00443`	UCH	197	216	1.3e-76	258.3
TkA06G018870	`PF00443`	UCH	313	889	1.3e-76	258.3
TkA06G018870	`PF13423`	UCH_1	313	492	6.9e-15	56.2
TkA06G018870	`PF14533`	USP7_C2	488	584	0.00018	22.0
TkA06G018870	`PF13423`	UCH_1	738	871	6.9e-15	56.2

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.

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Protein	Organism	Description	Identity	Database	Confidence
`Q9ZSB5`	Arabidopsis thaliana	sp\|Q9ZSB5\|UBP10_ARATH Ubiquitin carboxyl-terminal hydrolase 10	56.700%	Swiss-Prot	High
`Q93Y01`	Arabidopsis thaliana	sp\|Q93Y01\|UBP9_ARATH Ubiquitin carboxyl-terminal hydrolase 9	56.500%	Swiss-Prot	High
`Q9MAQ3`	Arabidopsis thaliana	sp\|Q9MAQ3\|UBP11_ARATH Putative ubiquitin carboxyl-terminal hydrolase 11	56.800%	Swiss-Prot	High
`O22207`	Arabidopsis thaliana	sp\|O22207\|UBP5_ARATH Ubiquitin carboxyl-terminal hydrolase 5	44.500%	Swiss-Prot	Medium
`Q9C585`	Arabidopsis thaliana	sp\|Q9C585\|UBP8_ARATH Ubiquitin carboxyl-terminal hydrolase 8	45.000%	Swiss-Prot	Medium

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