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UBN1 ubinuclein 1 [ Homo sapiens (human) ]

Gene ID: 29855, updated on 4-Jun-2020

Summary

Official Symbol
UBN1provided by HGNC
Official Full Name
ubinuclein 1provided by HGNC
Primary source
HGNC:HGNC:12506
See related
Ensembl:ENSG00000118900 MIM:609771
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
VT; VT4
Summary
Cellular senescence is a hallmark of tumor suppression and tissue aging. Senescent cells contain domains of heterochromatin, called senescence-associated heterochromatin foci (SAHF), that repress proliferation-promoting genes. The protein encoded by this gene binds to proliferation-promoting genes and is required for SAHF formation, enhancing methylation of histone H3. [provided by RefSeq, Oct 2016]
Expression
Broad expression in testis (RPKM 22.1), bone marrow (RPKM 13.0) and 25 other tissues See more
Orthologs

Genomic context

See UBN1 in Genome Data Viewer
Location:
16p13.3
Exon count:
20
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 16 NC_000016.10 (4846665..4882401)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (4896666..4932363)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene septin 12 Neighboring gene small integral membrane protein 22 Neighboring gene rogdi atypical leucine zipper Neighboring gene glyoxylate reductase 1 homolog Neighboring gene uncharacterized LOC105371064 Neighboring gene periplakin Neighboring gene SEC14 like lipid binding 5

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 Functions

What's a GeneRIF?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
DNA binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
DNA replication-independent nucleosome assembly IDA
Inferred from Direct Assay
more info
PubMed 
viral process IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
PML body IEA
Inferred from Electronic Annotation
more info
 
bicellular tight junction ISS
Inferred from Sequence or Structural Similarity
more info
 
nuclear body IDA
Inferred from Direct Assay
more info
 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
ubinuclein-1
Names
HIRA-binding protein
ubiquitously expressed nuclear 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.

Genomic

  1. NG_051820.1 RefSeqGene

    Range
    5967..40737
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001079514.3NP_001072982.1  ubinuclein-1 isoform a

    See identical proteins and their annotated locations for NP_001072982.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) represents the longest transcript and encodes the longer isoform (a).
    Source sequence(s)
    AC020663, AC027687
    Consensus CDS
    CCDS10525.1
    UniProtKB/Swiss-Prot
    Q9NPG3
    Related
    ENSP00000262376.5, ENST00000262376.11
    Conserved Domains (2) summary
    pfam08729
    Location:119168
    HUN; HPC2 and ubinuclein domain
    pfam14075
    Location:360573
    UBN_AB; Ubinuclein conserved middle domain
  2. NM_001288656.1NP_001275585.1  ubinuclein-1 isoform b

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR and lacks an in-frame exon in the 3' coding region, compared to variant 2. The encoded isoform (b) is shorter, compared to isoform a.
    Source sequence(s)
    AF108460, AK300131, AU120544, BC013750, BG822152, BQ186272, CB242197, CV574190
    Consensus CDS
    CCDS73822.1
    UniProtKB/Swiss-Prot
    Q9NPG3
    Related
    ENSP00000468740.1, ENST00000590769.5
    Conserved Domains (2) summary
    pfam08729
    Location:119168
    HUN; HPC2 and ubinuclein domain
    pfam14075
    Location:360573
    UBN_AB; Ubinuclein conserved middle domain

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000016.10 Reference GRCh38.p13 Primary Assembly

    Range
    4846665..4882401
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005255278.3XP_005255335.1  ubinuclein-1 isoform X1

    See identical proteins and their annotated locations for XP_005255335.1

    Conserved Domains (2) summary
    pfam08729
    Location:119168
    HUN; HPC2 and ubinuclein domain
    pfam14075
    Location:360573
    UBN_AB; Ubinuclein conserved middle domain
  2. XM_017023189.2XP_016878678.1  ubinuclein-1 isoform X3

    UniProtKB/Swiss-Prot
    Q9NPG3
    Conserved Domains (2) summary
    pfam08729
    Location:119168
    HUN; HPC2 and ubinuclein domain
    pfam14075
    Location:360573
    UBN_AB; Ubinuclein conserved middle domain
  3. XM_011522465.2XP_011520767.1  ubinuclein-1 isoform X5

    Conserved Domains (2) summary
    pfam08729
    Location:119168
    HUN; HPC2 and ubinuclein domain
    pfam14075
    Location:360573
    UBN_AB; Ubinuclein conserved middle domain
  4. XM_017023190.2XP_016878679.1  ubinuclein-1 isoform X4

  5. XM_005255277.4XP_005255334.1  ubinuclein-1 isoform X1

    See identical proteins and their annotated locations for XP_005255334.1

    Conserved Domains (2) summary
    pfam08729
    Location:119168
    HUN; HPC2 and ubinuclein domain
    pfam14075
    Location:360573
    UBN_AB; Ubinuclein conserved middle domain
  6. XM_005255279.4XP_005255336.1  ubinuclein-1 isoform X2

    Conserved Domains (2) summary
    pfam08729
    Location:119168
    HUN; HPC2 and ubinuclein domain
    pfam14075
    Location:360525
    UBN_AB; Ubinuclein conserved middle domain
  7. XM_017023192.2XP_016878681.1  ubinuclein-1 isoform X8

  8. XM_011522467.2XP_011520769.1  ubinuclein-1 isoform X9

    Conserved Domains (2) summary
    pfam08729
    Location:119168
    HUN; HPC2 and ubinuclein domain
    pfam14075
    Location:360569
    UBN_AB; Ubinuclein conserved middle domain
  9. XM_011522466.2XP_011520768.1  ubinuclein-1 isoform X6

    Conserved Domains (1) summary
    pfam14075
    Location:37217
    UBN_AB; Ubinuclein conserved middle domain
  10. XM_017023191.1XP_016878680.1  ubinuclein-1 isoform X7

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_016936.3: Suppressed sequence

    Description
    NM_016936.3: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript.
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