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Aliases for USP49 Gene

Aliases for USP49 Gene

  • Ubiquitin Specific Peptidase 49 2 3 5
  • Ubiquitin-Specific-Processing Protease 49 4
  • Ubiquitin Specific Protease 49 2
  • Deubiquitinating Enzyme 49 4
  • Ubiquitin Thioesterase 49 4
  • EC 3.4.19.12 4
  • EC 3.1.2.15 56

External Ids for USP49 Gene

Previous GeneCards Identifiers for USP49 Gene

  • GC06M041874
  • GC06M041919
  • GC06M041981
  • GC06M041876
  • GC06M041762
  • GC06M041484
  • GC06M041787

Summaries for USP49 Gene

GeneCards Summary for USP49 Gene

USP49 (Ubiquitin Specific Peptidase 49) is a Protein Coding gene. Among its related pathways are Metabolism of proteins and Deubiquitination. Gene Ontology (GO) annotations related to this gene include histone binding and cysteine-type peptidase activity. An important paralog of this gene is USP44.

UniProtKB/Swiss-Prot for USP49 Gene

  • Specifically deubiquitinates histone H2B at Lys-120 (H2BK120Ub). H2BK120Ub is a specific tag for epigenetic transcriptional activation and acts as a regulator of mRNA splicing. Deubiquitination is required for efficient cotranscriptional splicing of a large set of exons.

Additional gene information for USP49 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for USP49 Gene

Genomics for USP49 Gene

GeneHancer (GH) Regulatory Elements for USP49 Gene

Promoters and enhancers for USP49 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH06I041894 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 562.8 -0.2 -190 2.7 HDGF PKNOX1 FOXA2 ARNT SIN3A YBX1 DMAP1 ZBTB7B POLR2B E2F8 USP49 MED20 BYSL
GH06I041871 Promoter 0.5 EPDnew 561.7 +23.8 23751 0.1 USP49 BYSL MED20 ENSG00000207371 ENSG00000206977 ENSG00000214732 GUCA1A ENSG00000227516
GH06I041934 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 22.8 -43.3 -43344 8.9 HDGF PKNOX1 CLOCK SMAD1 ARNT ZFP64 ARID4B SIN3A DMAP1 ZNF2 CCND3 ENSG00000124593 USP49 FRS3 MED20 UBR2 BICRAL ENSG00000207371 BYSL RNU6-761P
GH06I042040 Promoter/Enhancer 2.8 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 11.2 -151.0 -150968 11 FEZF1 DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 ZNF143 ZNF263 SP3 CCND3 TAF8 PIR49026 ENSG00000124593 RNU6-761P ENSG00000207371 MED20 BYSL FRS3 PRICKLE4
GH06I041784 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 12 +108.9 108909 4.7 ZFP64 IRF4 YY1 SLC30A9 E2F8 ZNF143 SP3 NFYC SSRP1 GLIS1 FRS3 TOMM6 ENSG00000124593 MED20 USP49 BICRAL BYSL ENSG00000207371 PGC PRICKLE4
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around USP49 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the USP49 gene promoter:

Genomic Locations for USP49 Gene

Genomic Locations for USP49 Gene
chr6:41,789,896-41,895,361
(GRCh38/hg38)
Size:
105,466 bases
Orientation:
Minus strand
chr6:41,757,634-41,863,099
(GRCh37/hg19)

Genomic View for USP49 Gene

Genes around USP49 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
USP49 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for USP49 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for USP49 Gene

Proteins for USP49 Gene

  • Protein details for USP49 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q70CQ1-UBP49_HUMAN
    Recommended name:
    Ubiquitin carboxyl-terminal hydrolase 49
    Protein Accession:
    Q70CQ1
    Secondary Accessions:
    • Q5T3D9
    • Q5T3E0
    • Q96CK4

    Protein attributes for USP49 Gene

    Size:
    688 amino acids
    Molecular mass:
    79198 Da
    Quaternary structure:
    • Component of a complex with RUVBL1 and PSMC5.

    Alternative splice isoforms for USP49 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for USP49 Gene

Selected DME Specific Peptides for USP49 Gene

Q70CQ1:
  • NLGNTCYMN
  • QQDAQEFL

Post-translational modifications for USP49 Gene

Other Protein References for USP49 Gene

Domains & Families for USP49 Gene

Gene Families for USP49 Gene

HGNC:
Human Protein Atlas (HPA):
  • Enzymes
  • Plasma proteins
  • Predicted intracellular proteins

Suggested Antigen Peptide Sequences for USP49 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q70CQ1

UniProtKB/Swiss-Prot:

UBP49_HUMAN :
  • Belongs to the peptidase C19 family.
Family:
  • Belongs to the peptidase C19 family.
genes like me logo Genes that share domains with USP49: view

Function for USP49 Gene

Molecular function for USP49 Gene

UniProtKB/Swiss-Prot CatalyticActivity:
Thiol-dependent hydrolysis of ester, thioester, amide, peptide and isopeptide bonds formed by the C-terminal Gly of ubiquitin (a 76-residue protein attached to proteins as an intracellular targeting signal).
UniProtKB/Swiss-Prot Function:
Specifically deubiquitinates histone H2B at Lys-120 (H2BK120Ub). H2BK120Ub is a specific tag for epigenetic transcriptional activation and acts as a regulator of mRNA splicing. Deubiquitination is required for efficient cotranscriptional splicing of a large set of exons.

Enzyme Numbers (IUBMB) for USP49 Gene

Phenotypes From GWAS Catalog for USP49 Gene

Gene Ontology (GO) - Molecular Function for USP49 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004197 cysteine-type endopeptidase activity IMP 23824326
GO:0004843 thiol-dependent ubiquitin-specific protease activity IDA 14715245
GO:0005515 protein binding IPI 19615732
GO:0008233 peptidase activity IEA --
GO:0008234 cysteine-type peptidase activity IEA --
genes like me logo Genes that share ontologies with USP49: view
genes like me logo Genes that share phenotypes with USP49: view

Animal Model Products

Clone Products

  • Addgene plasmids for USP49

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for USP49 Gene

Localization for USP49 Gene

Subcellular locations from UniProtKB/Swiss-Prot for USP49 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for USP49 gene
Compartment Confidence
nucleus 5
cytosol 2
mitochondrion 1

Gene Ontology (GO) - Cellular Components for USP49 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm TAS --
genes like me logo Genes that share ontologies with USP49: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for USP49 Gene

Pathways & Interactions for USP49 Gene

genes like me logo Genes that share pathways with USP49: view

Pathways by source for USP49 Gene

Gene Ontology (GO) - Biological Process for USP49 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000398 mRNA splicing, via spliceosome IMP 23824326
GO:0006397 mRNA processing IEA --
GO:0006508 proteolysis IEA --
GO:0006511 ubiquitin-dependent protein catabolic process IEA --
GO:0008380 RNA splicing IEA --
genes like me logo Genes that share ontologies with USP49: view

No data available for SIGNOR curated interactions for USP49 Gene

Drugs & Compounds for USP49 Gene

No Compound Related Data Available

Transcripts for USP49 Gene

Unigene Clusters for USP49 Gene

Ubiquitin specific peptidase 49:
Representative Sequences:

Clone Products

  • Addgene plasmids for USP49

Alternative Splicing Database (ASD) splice patterns (SP) for USP49 Gene

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5a · 5b
SP1:
SP2: -

Relevant External Links for USP49 Gene

GeneLoc Exon Structure for
USP49
ECgene alternative splicing isoforms for
USP49

Expression for USP49 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for USP49 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for USP49 Gene

This gene is overexpressed in Lung (64.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for USP49 Gene



Protein tissue co-expression partners for USP49 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of USP49 Gene:

USP49

SOURCE GeneReport for Unigene cluster for USP49 Gene:

Hs.665742

Evidence on tissue expression from TISSUES for USP49 Gene

  • Eye(4)
genes like me logo Genes that share expression patterns with USP49: view

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for USP49 Gene

Orthologs for USP49 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for USP49 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia USP49 33 34
  • 99.76 (n)
dog
(Canis familiaris)
Mammalia USP49 33 34
  • 90.88 (n)
mouse
(Mus musculus)
Mammalia Usp49 33 16 34
  • 90.16 (n)
cow
(Bos Taurus)
Mammalia USP49 33 34
  • 89.82 (n)
rat
(Rattus norvegicus)
Mammalia Usp49 33
  • 88.94 (n)
oppossum
(Monodelphis domestica)
Mammalia USP49 34
  • 76 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia USP49 34
  • 73 (a)
OneToOne
chicken
(Gallus gallus)
Aves USP49 33 34
  • 76.57 (n)
lizard
(Anolis carolinensis)
Reptilia USP49 34
  • 73 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia usp49 33
  • 67.87 (n)
zebrafish
(Danio rerio)
Actinopterygii usp49 33 34
  • 66.45 (n)
worm
(Caenorhabditis elegans)
Secernentea E01B7.1 34
  • 12 (a)
ManyToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes UBP5 34
  • 15 (a)
ManyToMany
DOA4 34
  • 13 (a)
ManyToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 40 (a)
OneToMany
Species where no ortholog for USP49 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for USP49 Gene

ENSEMBL:
Gene Tree for USP49 (if available)
TreeFam:
Gene Tree for USP49 (if available)

Paralogs for USP49 Gene

Variants for USP49 Gene

Sequence variations from dbSNP and Humsavar for USP49 Gene

SNP ID Clin Chr 06 pos Variation AA Info Type
rs1000017938 -- 41,813,724(-) C/T intron_variant
rs1000029524 -- 41,860,734(-) T/C intron_variant
rs1000033636 -- 41,872,028(-) G/A genic_upstream_transcript_variant, intron_variant, upstream_transcript_variant
rs1000074818 -- 41,831,206(-) A/G intron_variant
rs1000087244 -- 41,871,659(-) T/C genic_upstream_transcript_variant, intron_variant, upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for USP49 Gene

Variant ID Type Subtype PubMed ID
nsv1114800 CNV deletion 24896259

Variation tolerance for USP49 Gene

Residual Variation Intolerance Score: 14.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.02; 50.10% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for USP49 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
USP49

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for USP49 Gene

Disorders for USP49 Gene

Additional Disease Information for USP49

No disorders were found for USP49 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for USP49 Gene

Publications for USP49 Gene

  1. Cloning and enzymatic analysis of 22 novel human ubiquitin-specific proteases. (PMID: 14715245) Quesada V … López-Otín C (Biochemical and biophysical research communications 2004) 2 3 4 58
  2. USP49 deubiquitinates histone H2B and regulates cotranscriptional pre-mRNA splicing. (PMID: 23824326) Zhang Z … Wang H (Genes & development 2013) 3 4 58
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58
  4. USP49 negatively regulates tumorigenesis and chemoresistance through FKBP51-AKT signaling. (PMID: 28363942) Luo K … Yuan J (The EMBO journal 2017) 3 58
  5. USP18 recruits USP20 to promote innate antiviral response through deubiquitinating STING/MITA. (PMID: 27801882) Zhang M … Zhong B (Cell research 2016) 3 58

Products for USP49 Gene

  • Addgene plasmids for USP49

Sources for USP49 Gene

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