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SNU13 small nuclear ribonucleoprotein 13 [ Homo sapiens (human) ]

Gene ID: 4809, updated on 6-May-2021

Summary

Official Symbol
SNU13provided by HGNC
Official Full Name
small nuclear ribonucleoprotein 13provided by HGNC
Primary source
HGNC:HGNC:7819
See related
Ensembl:ENSG00000100138 MIM:601304
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
FA1; FA-1; NHPX; 15.5K; OTK27; SSFA1; NHP2L1; SPAG12; SNRNP15-5
Summary
Originally named because of its sequence similarity to the Saccharomyces cerevisiae NHP2 (non-histone protein 2), this protein appears to be a highly conserved nuclear protein that is a component of the [U4/U6.U5] tri-snRNP. It binds to the 5' stem-loop of U4 snRNA. Two transcript variants encoding the same protein have been found for this gene. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in brain (RPKM 32.6), adrenal (RPKM 31.2) and 25 other tissues See more
Orthologs
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Genomic context

See SNU13 in Genome Data Viewer
Location:
22q13.2
Exon count:
6
Annotation release Status Assembly Chr Location
109.20210226 current GRCh38.p13 (GCF_000001405.39) 22 NC_000022.11 (41673933..41690492, complement)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 22 NC_000022.10 (42069937..42084871, complement)

Chromosome 22 - NC_000022.11Genomic Context describing neighboring genes Neighboring gene desumoylating isopeptidase 1 Neighboring gene X-ray repair cross complementing 6 Neighboring gene protein LLP homolog pseudogene Neighboring gene RNA, U6 small nuclear 476, pseudogene Neighboring gene CTA-216E10.6 Neighboring gene high mobility group nucleosomal binding domain 2 pseudogene10 Neighboring gene meiotic double-stranded break formation protein 1 Neighboring gene RNA, U6atac small nuclear 22, pseudogene

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?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Tat tat Expression of HIV-1 Tat upregulates the abundance of NHP2 non-histone chromosome protein 2-like 1 (NHP2L1) in the nucleoli of Jurkat T-cells PubMed
nucleocapsid gag HIV-1 NC is identified to have a physical interaction with NHP2 non-histone chromosome protein 2-like 1 (NHP2L1) in human HEK293 and/or Jurkat cell lines by using affinity tagging and purification mass spectrometry analyses PubMed

Go to the HIV-1, Human Interaction Database

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
enables ATPase binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables RNA binding HDA PubMed 
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables U3 snoRNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables U4 snRNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables U4atac snRNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables box C/D RNA binding IDA
Inferred from Direct Assay
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
contributes_to snoRNA binding IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
involved_in box C/D snoRNP assembly IEA
Inferred from Electronic Annotation
more info
 
involved_in mRNA splicing, via spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in mRNA splicing, via spliceosome IDA
Inferred from Direct Assay
more info
PubMed 
involved_in mRNA splicing, via spliceosome TAS
Traceable Author Statement
more info
 
involved_in maturation of LSU-rRNA IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in maturation of SSU-rRNA IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in rRNA processing TAS
Traceable Author Statement
more info
 
involved_in single fertilization IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
part_of U2-type precatalytic spliceosome IDA
Inferred from Direct Assay
more info
PubMed 
part_of U4/U6 x U5 tri-snRNP complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of U4/U6 x U5 tri-snRNP complex IDA
Inferred from Direct Assay
more info
PubMed 
part_of U4atac snRNP IDA
Inferred from Direct Assay
more info
PubMed 
part_of box C/D RNP complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of box C/D RNP complex IDA
Inferred from Direct Assay
more info
PubMed 
part_of box C/D RNP complex NAS
Non-traceable Author Statement
more info
PubMed 
located_in dense fibrillar component IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleolus IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleoplasm TAS
Traceable Author Statement
more info
 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
part_of precatalytic spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of protein-containing complex IDA
Inferred from Direct Assay
more info
PubMed 
part_of small-subunit processome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
NHP2-like protein 1
Names
NHP2 non-histone chromosome protein 2-like 1
SNU13 homolog, small nuclear ribonucleoprotein (U4/U6.U5)
U4/U6.U5 tri-snRNP 15.5 kDa protein
[U4/U6.U5] tri-snRNP 15.5 kD RNA binding protein
high mobility group-like nuclear protein 2 homolog 1
non-histone chromosome protein 2-like 1
sperm specific antigen 1

NCBI Reference Sequences (RefSeq)

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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_051551.1 RefSeqGene

    Range
    6626..21560
    Download
    GenBank, FASTA, Sequence Viewer (Graphics), LRG_1102

mRNA and Protein(s)

  1. NM_001003796.2NP_001003796.1  NHP2-like protein 1

    See identical proteins and their annotated locations for NP_001003796.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 use different start codons but encode the same protein.
    Source sequence(s)
    BI770951, CF552526, D50420
    Consensus CDS
    CCDS33653.1
    UniProtKB/Swiss-Prot
    P55769
    UniProtKB/TrEMBL
    Q6FHM6
    Related
    ENSP00000383949.1, ENST00000401959.6
    Conserved Domains (1) summary
    cd21104
    Location:7128
    SNU13; U4/U6.U5 small nuclear ribonucleoprotein SNU13
  2. NM_005008.4NP_004999.1  NHP2-like protein 1

    See identical proteins and their annotated locations for NP_004999.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript. Variants 1 and 2 encode the same protein.
    Source sequence(s)
    BC019282, D50420, DB021462
    Consensus CDS
    CCDS14022.1
    UniProtKB/Swiss-Prot
    P55769
    UniProtKB/TrEMBL
    Q6FHM6
    Related
    ENSP00000497142.1, ENST00000648674.1
    Conserved Domains (1) summary
    cd21104
    Location:7128
    SNU13; U4/U6.U5 small nuclear ribonucleoprotein SNU13

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210226

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000022.11 Reference GRCh38.p13 Primary Assembly

    Range
    41673933..41690492 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017028811.1XP_016884300.1  NHP2-like protein 1 isoform X1

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