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UBAP1 ubiquitin associated protein 1 [ Homo sapiens (human) ]

Gene ID: 51271, updated on 9-Dec-2018

Summary

Official Symbol
UBAP1provided by HGNC
Official Full Name
ubiquitin associated protein 1provided by HGNC
Primary source
HGNC:HGNC:12461
See related
Ensembl:ENSG00000165006 MIM:609787
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
UAP; UBAP; NAG20; UBAP-1
Summary
This gene is a member of the UBA domain family, whose members include proteins having connections to ubiquitin and the ubiquitination pathway. The ubiquitin associated domain is thought to be a non-covalent ubiquitin binding domain consisting of a compact three helix bundle. This particular protein originates from a gene locus in a refined region on chromosome 9 undergoing loss of heterozygosity in nasopharyngeal carcinoma (NPC). Taking into account its cytogenetic location, this UBA domain family member is being studies as a putative target for mutation in nasopharyngeal carcinomas. Multiple alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jan 2010]
Expression
Ubiquitous expression in bone marrow (RPKM 39.6), testis (RPKM 26.3) and 25 other tissues See more
Orthologs

Genomic context

See UBAP1 in Genome Data Viewer
Location:
9p13.3
Exon count:
12
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 9 NC_000009.12 (34179005..34252523)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (34179003..34252521)

Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene DDB1 and CUL4 associated factor 12 Neighboring gene tubulin beta 4B class IVb pseudogene 2 Neighboring gene tubulin beta pseudogene 4 Neighboring gene inosine monophosphate dehydrogenase 1 pseudogene 1 Neighboring gene uncharacterized LOC114224 Neighboring gene ribosomal protein L35a pseudogene 2 Neighboring gene RNA, 5S ribosomal pseudogene 282 Neighboring gene ribosomal protein S8 pseudogene 9 Neighboring gene kinesin family member 24 Neighboring gene RNA, U2 small nuclear 50, pseudogene Neighboring gene serpin family H member 1 pseudogene 1

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Vpu vpu Physiological levels of Vpu requires the core ESCRT pathway (TSG1010 and UBAP1) and HGA (HRS) for Vpu-mediated BST-2 (tetherin) degradation but does not require these proteins for counteraction of BST2 (tetherin's) physical antiviral activity PubMed
vpu The ubiquitin associated protein 1 (UBAP1)-containing ESCRT-I is essential for degradation of antiviral cell-surface proteins such as tetherin (BST-2/CD317) by HIV-1 Vpu PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC8710, MGC119669

Gene Ontology Provided by GOA

Function Evidence Code Pubs
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
ubiquitin binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
ubiquitin binding IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
endosomal transport TAS
Traceable Author Statement
more info
 
protein transport IEA
Inferred from Electronic Annotation
more info
 
ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
viral life cycle TAS
Traceable Author Statement
more info
 
Component Evidence Code Pubs
ESCRT I complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
ESCRT I complex IDA
Inferred from Direct Assay
more info
PubMed 
Golgi apparatus IDA
Inferred from Direct Assay
more info
 
cytoplasm IDA
Inferred from Direct Assay
more info
 
cytosol IDA
Inferred from Direct Assay
more info
PubMed 
endosome membrane TAS
Traceable Author Statement
more info
 
plasma membrane IDA
Inferred from Direct Assay
more info
 

General protein information

Preferred Names
ubiquitin-associated protein 1
Names
nasopharyngeal carcinoma-associated gene 20 protein

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001171201.1NP_001164672.1  ubiquitin-associated protein 1 isoform 2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) lacks an internal coding exon, which results in an in-frame upstream AUG start codon, as compared to variant 1. The resulting isoform (2) is longest and has a different N-terminus, as compared to isoform 1.
    Source sequence(s)
    AK303711, AL353662, BC020950
    Consensus CDS
    CCDS55303.1
    UniProtKB/Swiss-Prot
    Q9NZ09
    Related
    ENSP00000486574.1, ENST00000625521.2
    Conserved Domains (2) summary
    cd14315
    Location:452494
    UBA1_UBAP1; UBA1 domain found in vertebrate ubiquitin-associated protein 1 (UBAP-1)
    cd14316
    Location:524560
    UBA2_UBAP1_like; UBA2 domain found in ubiquitin-associated protein 1 (UBAP-1) and similar proteins
  2. NM_001171202.1NP_001164673.1  ubiquitin-associated protein 1 isoform 3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) lacks an internal coding exon, which results in an in-frame upstream AUG start codon, as compared to variant 1. The resulting isoform (3) is longer and has a different N-terminus, as compared to isoform 1.
    Source sequence(s)
    AK074812, AK295482, AL353662, BC020950
    UniProtKB/Swiss-Prot
    Q9NZ09
    Related
    ENSP00000487222.1, ENST00000626262.2
    Conserved Domains (2) summary
    cd14315
    Location:424466
    UBA1_UBAP1; UBA1 domain found in vertebrate ubiquitin-associated protein 1 (UBAP-1)
    cd14316
    Location:496532
    UBA2_UBAP1_like; UBA2 domain found in ubiquitin-associated protein 1 (UBAP-1) and similar proteins
  3. NM_001171203.2NP_001164674.1  ubiquitin-associated protein 1 isoform 1

    See identical proteins and their annotated locations for NP_001164674.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) is the longest transcript; it has an additional exon in the 5' UTR, as compared to variant 1. Variants 1-3 encode the same isoform 1.
    Source sequence(s)
    AK303711, AL353662, BC100668, DA741347
    Consensus CDS
    CCDS6550.1
    UniProtKB/Swiss-Prot
    Q9NZ09
    Conserved Domains (2) summary
    cd14315
    Location:388430
    UBA1_UBAP1; UBA1 domain found in vertebrate ubiquitin-associated protein 1 (UBAP-1)
    cd14316
    Location:460496
    UBA2_UBAP1_like; UBA2 domain found in ubiquitin-associated protein 1 (UBAP-1) and similar proteins
  4. NM_001171204.2NP_001164675.1  ubiquitin-associated protein 1 isoform 1

    See identical proteins and their annotated locations for NP_001164675.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) has an additional exon in the 5' UTR, as compared to variant 1. Variants 1-3 encode the same isoform 1.
    Source sequence(s)
    AK074969, AK303711, AL353662, BC020950
    Consensus CDS
    CCDS6550.1
    UniProtKB/Swiss-Prot
    Q9NZ09
    Conserved Domains (2) summary
    cd14315
    Location:388430
    UBA1_UBAP1; UBA1 domain found in vertebrate ubiquitin-associated protein 1 (UBAP-1)
    cd14316
    Location:460496
    UBA2_UBAP1_like; UBA2 domain found in ubiquitin-associated protein 1 (UBAP-1) and similar proteins
  5. NM_016525.5NP_057609.2  ubiquitin-associated protein 1 isoform 1

    See identical proteins and their annotated locations for NP_057609.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) is the dominant transcript and encodes the dominant isoform (1).
    Source sequence(s)
    AK074812, AL353662
    Consensus CDS
    CCDS6550.1
    UniProtKB/Swiss-Prot
    Q9NZ09
    Related
    ENSP00000297661.4, ENST00000297661.8
    Conserved Domains (2) summary
    cd14315
    Location:388430
    UBA1_UBAP1; UBA1 domain found in vertebrate ubiquitin-associated protein 1 (UBAP-1)
    cd14316
    Location:460496
    UBA2_UBAP1_like; UBA2 domain found in ubiquitin-associated protein 1 (UBAP-1) and similar proteins

RNA

  1. NR_033243.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) has an additional exon, as compared to variant 1. The transcript has two uORFs; the second uORF has a strong Kozak signal and overlaps the downstream ORF, so the transcript is a nonsense-mediated mRNA decay candidate.
    Source sequence(s)
    AK303711, AL353662, BC100668, BP237024

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000009.12 Reference GRCh38.p12 Primary Assembly

    Range
    34179005..34252523
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011517899.1XP_011516201.1  ubiquitin-associated protein 1 isoform X2

    See identical proteins and their annotated locations for XP_011516201.1

    UniProtKB/Swiss-Prot
    Q9NZ09
    Conserved Domains (2) summary
    cd14315
    Location:388430
    UBA1_UBAP1; UBA1 domain found in vertebrate ubiquitin-associated protein 1 (UBAP-1)
    cd14316
    Location:460496
    UBA2_UBAP1_like; UBA2 domain found in ubiquitin-associated protein 1 (UBAP-1) and similar proteins
  2. XM_011517900.1XP_011516202.1  ubiquitin-associated protein 1 isoform X4

    See identical proteins and their annotated locations for XP_011516202.1

    Conserved Domains (2) summary
    cd14315
    Location:336378
    UBA1_UBAP1; UBA1 domain found in vertebrate ubiquitin-associated protein 1 (UBAP-1)
    cd14316
    Location:408444
    UBA2_UBAP1_like; UBA2 domain found in ubiquitin-associated protein 1 (UBAP-1) and similar proteins
  3. XM_006716779.4XP_006716842.1  ubiquitin-associated protein 1 isoform X2

    See identical proteins and their annotated locations for XP_006716842.1

    UniProtKB/Swiss-Prot
    Q9NZ09
    Related
    ENSP00000352541.2, ENST00000359544.2
    Conserved Domains (2) summary
    cd14315
    Location:388430
    UBA1_UBAP1; UBA1 domain found in vertebrate ubiquitin-associated protein 1 (UBAP-1)
    cd14316
    Location:460496
    UBA2_UBAP1_like; UBA2 domain found in ubiquitin-associated protein 1 (UBAP-1) and similar proteins
  4. XM_011517898.2XP_011516200.1  ubiquitin-associated protein 1 isoform X1

    Conserved Domains (2) summary
    cd14315
    Location:395437
    UBA1_UBAP1; UBA1 domain found in vertebrate ubiquitin-associated protein 1 (UBAP-1)
    cd14316
    Location:467503
    UBA2_UBAP1_like; UBA2 domain found in ubiquitin-associated protein 1 (UBAP-1) and similar proteins
  5. XM_017014801.1XP_016870290.1  ubiquitin-associated protein 1 isoform X2

    UniProtKB/Swiss-Prot
    Q9NZ09
    Conserved Domains (2) summary
    cd14315
    Location:388430
    UBA1_UBAP1; UBA1 domain found in vertebrate ubiquitin-associated protein 1 (UBAP-1)
    cd14316
    Location:460496
    UBA2_UBAP1_like; UBA2 domain found in ubiquitin-associated protein 1 (UBAP-1) and similar proteins
  6. XM_017014802.1XP_016870291.1  ubiquitin-associated protein 1 isoform X3

RNA

  1. XR_002956792.1 RNA Sequence

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