LXL04_000153 | RubberDandelionOmics

Gene overview

LXL04_000153

Reference: OH-1004 Chr: Chr01 Coordinates: 3227702-3239876 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1554 bp · LXL04_000153|LXL04_000153|OH1004|cDNA

ATGGAAGAAAGATTCATCGGAATGCATCTGCGATTCTCAGTACTAAAATCCGACTGCCTAGAATTGAAATGTGAAAGAAGGCTCTGCCAAATCTTATGCGTCACCTGTTCCCTGCTTTGGACTAGTTCCATTATTCCAAGTCttccgaggaaacaaggaatCATGGAGGTCAAACCCTCTAACGGAAATATCCTTGAAGAGCTGAGAAATGGTGCGGCGGAGTTCGAACTCGTCTCGTCTCCGGTCACCTCAATTTCTAC...

CDS

Download CDS FASTA

1554 bp · LXL04_000153|LXL04_000153|OH1004|CDS

ATGGAAGAAAGATTCATCGGAATGCATCTGCGATTCTCAGTACTAAAATCCGACTGCCTAGAATTGAAATGTGAAAGAAGGCTCTGCCAAATCTTATGCGTCACCTGTTCCCTGCTTTGGACTAGTTCCATTATTCCAAGTCTTCCGAGGAAACAAGGAATCATGGAGGTCAAACCCTCTAACGGAAATATCCTTGAAGAGCTGAGAAATGGTGCGGCGGAGTTCGAACTCGTCTCGTCTCCGGTCACCTCAATTTCTAC...

Protein

Download Protein FASTA

517 aa · LXL04_000153|LXL04_000153|OH1004|PROTEIN

MEERFIGMHLRFSVLKSDCLELKCERRLCQILCVTCSLLWTSSIIPSLPRKQGIMEVKPSNGNILEELRNGAAEFELVSSPVTSISTNFYRNAIRSVFITDHTHTHPFFARIGQKMEVSPPLSKVESLKVHKVNDNGRCMFRALVKGMAMNKSVNLTPREERESADDLRMAIKKVLCDNHKERHKYEDAIVAITVKEYLNLTVEKSLKRYCQRIGGSDFLGGESELLVLSKLYKQPIVVYISEHEHTRGRHGYGYIPIAE...

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	`LXL04_000153`
TK1151 ID	TkA01G630850
OH-1004 ID	LXL04_000153
Relationship / confidence	Sequence Supported Annotation Or Model Conflict / Review
Protein identity (%)	99.600
Protein coverage (%)	TK1151 99.580 / OH-1004 45.841 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	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_000153

Location Chr01:3227702-3239876 (+)

Description Similar to OTU3: OVARIAN TUMOR DOMAIN-containing deubiquitinating enzyme 3

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g38025`	Hydrolase that can remove conjugated ubiquitin from proteins in vitro and may therefore play an important regulatory role at the level of protein turnover by preventing degradation.	Distinct phylogenetic relationships and biochemical properties of Arabidopsis ovarian tumor-related deubiquitinases support their functional differentiation.2014 · DOI: 10.3389/fpls.2014.00084
`At3g57810`	Hydrolase that can remove conjugated ubiquitin from proteins in vitro and may therefore play an important regulatory role at the level of protein turnover by preventing degradation.	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_000153 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0030968 endoplasmic reticulum unfolded protein response Biological Process

GO:0036503 ERAD pathway Biological Process

GO:0005634 nucleus Cellular Component

GO:0005739 mitochondrion Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0004843 cysteine-type deubiquitinase activity Molecular Function

KEGG gene cross-reference

ath:AT2G38025

ath:AT3G57810

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.

Cytoplasm0.637

Rank 1 · LXL04_000153 · OH-1004

Nucleus0.349

Rank 2 · LXL04_000153 · OH-1004

Cell membrane0.083

Rank 3 · LXL04_000153 · OH-1004

Mitochondrion0.080

Rank 4 · LXL04_000153 · OH-1004

Endoplasmic reticulum0.058

Rank 5 · LXL04_000153 · OH-1004

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.

PF02338.26OTU136-250 aa

PF02338.26OTU370-513 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_000153	`PF02338.26`	OTU	136	250	5.2e-20	73.0
LXL04_000153	`PF02338.26`	OTU	370	513	5.2e-20	73.0

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
`Q8GYW0`	Arabidopsis thaliana	OVARIAN TUMOR DOMAIN-containing deubiquitinating enzyme 3	64.502%	Swiss-Prot	weak database homology
`Q8LBZ4`	Arabidopsis thaliana	OVARIAN TUMOR DOMAIN-containing deubiquitinating enzyme 4	34.868%	Swiss-Prot	weak database homology

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