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NOP16 NOP16 nucleolar protein [ Homo sapiens (human) ]

Gene ID: 51491, updated on 17-Jun-2019

Summary

Official Symbol
NOP16provided by HGNC
Official Full Name
NOP16 nucleolar proteinprovided by HGNC
Primary source
HGNC:HGNC:26934
See related
Ensembl:ENSG00000048162 MIM:612861
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
HSPC111; HSPC185
Summary
This gene encodes a protein that is localized to the nucleolus. Expression of this gene is induced by estrogens and Myc protein and is a marker of poor patient survival in breast cancer. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Dec 2015]
Expression
Ubiquitous expression in colon (RPKM 17.7), appendix (RPKM 14.8) and 25 other tissues See more
Orthologs

Genomic context

See NOP16 in Genome Data Viewer
Location:
5q35.2
Exon count:
6
Annotation release Status Assembly Chr Location
109.20190607 current GRCh38.p13 (GCF_000001405.39) 5 NC_000005.10 (176383937..176388927, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (175810940..175815763, complement)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene KIAA1191 Neighboring gene microRNA 1271 Neighboring gene ADP ribosylation factor like GTPase 10 Neighboring gene HIG1 hypoxia inducible domain family member 2A Neighboring gene clathrin light chain B Neighboring gene Fas associated factor family member 2

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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA binding HDA PubMed 
Process Evidence Code Pubs
ribosomal large subunit biogenesis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
intracellular membrane-bounded organelle IDA
Inferred from Direct Assay
more info
 
nucleolus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleolus IDA
Inferred from Direct Assay
more info
 
nucleus IDA
Inferred from Direct Assay
more info
 

General protein information

Preferred Names
nucleolar protein 16
Names
HBV pre-S2 trans-regulated protein 3
NOP16 nucleolar protein homolog
hypothetical protein HSPC111
nucleolar protein 16 homolog

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_001256539.3NP_001243468.2  nucleolar protein 16 isoform 1

    See identical proteins and their annotated locations for NP_001243468.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AF151875, BC019331, BM988284, CB122385
    Consensus CDS
    CCDS78091.1
    UniProtKB/Swiss-Prot
    Q9Y3C1
    Related
    ENSP00000483001.1, ENST00000618911.4
    Conserved Domains (1) summary
    pfam09420
    Location:16131
    Nop16; Ribosome biogenesis protein Nop16
  2. NM_001256540.4NP_001243469.2  nucleolar protein 16 isoform 2

    See identical proteins and their annotated locations for NP_001243469.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 3' coding region compared to variant 1. The resulting isoform (2) is shorter than isoform 1.
    Source sequence(s)
    BC019331
    Consensus CDS
    CCDS58991.2
    UniProtKB/Swiss-Prot
    Q9Y3C1
    UniProtKB/TrEMBL
    A0A0C4DGU5
    Related
    ENSP00000479445.1, ENST00000621444.4
    Conserved Domains (1) summary
    pfam09420
    Location:9132
    Nop16; Ribosome biogenesis protein Nop16
  3. NM_001291305.3NP_001278234.1  nucleolar protein 16 isoform 4

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) uses alternate splice sites at two exons and initiates translation at an alternate start codon, compared to variant 1. The resulting isoform (4) has a distinct N-terminus and is shorter than isoform 1.
    Source sequence(s)
    BC019331, BU741840
    UniProtKB/Swiss-Prot
    Q9Y3C1
    Conserved Domains (1) summary
    pfam09420
    Location:68119
    Nop16; Ribosome biogenesis protein Nop16
  4. NM_001291307.3NP_001278236.1  nucleolar protein 16 isoform 6

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) uses an alternate splice site in the 3' coding region, which results in a frameshift, compared to variant 1. The resulting isoform (6) has a shorter and distinct C-terminus compared to isoform 1.
    Source sequence(s)
    BC019331, BU594763
    UniProtKB/Swiss-Prot
    Q9Y3C1
    Related
    ENSP00000427489.1, ENST00000509257.1
    Conserved Domains (1) summary
    pfam09420
    Location:9132
    Nop16; Ribosome biogenesis protein Nop16
  5. NM_001291308.3NP_001278237.1  nucleolar protein 16 isoform 7

    See identical proteins and their annotated locations for NP_001278237.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (7) lacks an internal coding exon, which results in a frameshift, and uses an alternate splice site in the 3' terminal exon, compared to variant 1. The resulting isoform (7) has a shorter and distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AF151875, BC019331, BM826387
    UniProtKB/Swiss-Prot
    Q9Y3C1
    Conserved Domains (1) summary
    pfam09420
    Location:963
    Nop16; Ribosome biogenesis protein Nop16
  6. NM_001317975.2NP_001304904.1  nucleolar protein 16 isoform 8

    Status: REVIEWED

    Description
    Transcript Variant: This variant (8) contains an additional segment in the 5' region and uses an alternate splice site in the 3' coding region, which results in a frameshift, compared to variant 1. It initiates translation at an alternate start codon. The resulting isoform (8) has distinct N- and C-termini and is shorter than isoform 1.
    Source sequence(s)
    AF161460, BP234677
    UniProtKB/Swiss-Prot
    Q9Y3C1
    Conserved Domains (1) summary
    pfam09420
    Location:34148
    Nop16; Ribosome biogenesis protein Nop16
  7. NM_016391.8NP_057475.2  nucleolar protein 16 isoform 3

    See identical proteins and their annotated locations for NP_057475.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) uses an alternate splice in the 3' coding region, which results in a frameshift, compared to variant 1. The resulting isoform (3) has a shorter and distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AF161460, BC019331
    Consensus CDS
    CCDS43403.1
    UniProtKB/Swiss-Prot
    Q9Y3C1
    Related
    ENSP00000480832.1, ENST00000614830.4
    Conserved Domains (1) summary
    pfam09420
    Location:20153
    Nop16; Ribosome biogenesis protein Nop16

RNA

  1. NR_134316.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (9) contains an alternate segment in the 5' region and uses two alternate splice sites compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 8, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AF151875, AF161460, AW837047, BM988284
  2. NR_134318.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (10) contains an alternate internal exon and uses an alternate splice site in the 3' terminal exon compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC138956, AF151875, BC019331, BM988284, HY064071

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.p13 Primary Assembly

Genomic

  1. NC_000005.10 Reference GRCh38.p13 Primary Assembly

    Range
    176383937..176388927 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011534567.1XP_011532869.1  nucleolar protein 16 isoform X1

    See identical proteins and their annotated locations for XP_011532869.1

    Conserved Domains (1) summary
    pfam09420
    Location:963
    Nop16; Ribosome biogenesis protein Nop16

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001291306.1: Suppressed sequence

    Description
    NM_001291306.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
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