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Aliases for SNU13 Gene

Aliases for SNU13 Gene

  • Small Nuclear Ribonucleoprotein 13 2 3 5
  • SNU13 Homolog, Small Nuclear Ribonucleoprotein (U4/U6.U5) 2 3
  • High Mobility Group-Like Nuclear Protein 2 Homolog 1 3 4
  • U4/U6.U5 Tri-SnRNP 15.5 KDa Protein 3 4
  • Sperm Specific Antigen 1 2 3
  • NHP2L1 3 4
  • OTK27 3 4
  • NHP2 Non-Histone Chromosome Protein 2-Like 1 (S. Cerevisiae) 2
  • Non-Histone Chromosome Protein 2 (S. Cerevisiae)-Like 1 2
  • Small Nuclear Ribonucleoprotein 15.5kDa (U4/U6.U5) 2
  • [U4/U6.U5] Tri-SnRNP 15.5 KD RNA Binding Protein 3
  • U4/U6.U5 Small Nuclear Ribonucleoprotein SNU13 4
  • NHP2 Non-Histone Chromosome Protein 2-Like 1 3
  • Non-Histone Chromosome Protein 2-Like 1 3
  • NHP2-Like Protein 1 3
  • SNU13 Homolog 4
  • SNRNP15-5 3
  • SPAG12 3
  • HSNU13 4
  • 15.5K 3
  • SSFA1 3
  • FA-1 3
  • NHPX 3
  • FA1 3

External Ids for SNU13 Gene

Previous HGNC Symbols for SNU13 Gene

  • SSFA1
  • NHP2L1

Previous GeneCards Identifiers for SNU13 Gene

  • GC22M041674
  • GC22M041814
  • GC22M041811

Summaries for SNU13 Gene

Entrez Gene Summary for SNU13 Gene

  • 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]

GeneCards Summary for SNU13 Gene

SNU13 (Small Nuclear Ribonucleoprotein 13) is a Protein Coding gene. Diseases associated with SNU13 include Sperm-Specific Antigen 1. Among its related pathways are mRNA Splicing - Major Pathway and Gene Expression.

UniProtKB/Swiss-Prot for SNU13 Gene

  • Binds to the 5-stem-loop of U4 snRNA and may play a role in the late stage of spliceosome assembly. The protein undergoes a conformational change upon RNA-binding.

Gene Wiki entry for SNU13 Gene

Additional gene information for SNU13 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SNU13 Gene

Genomics for SNU13 Gene

GeneHancer (GH) Regulatory Elements for SNU13 Gene

Promoters and enhancers for SNU13 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
GH22I041687 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 550.8 +2.1 2108 2.6 PKNOX1 SMAD1 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 POLR2B E2F8 C22orf46 SNU13 ENSG00000273424 RNU6-476P
GH22I041681 Promoter/Enhancer 1.9 EPDnew Ensembl ENCODE 550.4 +8.1 8107 2.4 PKNOX1 ATF1 SMAD1 MLX ARID4B SIN3A DMAP1 BRCA1 ZNF48 POLR2B SNU13 MEI1 RN7SKP80 SLC25A17 POLDIP3 RRP7BP EP300 PHF5A L3MBTL2 CCDC134
GH22I041690 Promoter/Enhancer 0.7 EPDnew Ensembl 550.8 +0.1 103 0.4 C22orf46 SNU13
GH22I040709 Enhancer 1.8 FANTOM5 Ensembl ENCODE dbSUPER 19.4 +978.3 978331 6.3 MLX FEZF1 ZNF213 ZNF416 SP3 MEF2D ZNF610 GLIS1 RCOR2 NBN L3MBTL2 EP300 PHF5A XRCC6 SLC25A17 ZC3H7B LOC100506544 SNU13 POLR3H C22orf46
GH22I041444 Promoter/Enhancer 2.7 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 9.9 +243.8 243788 5.9 MLX ZFP64 FEZF1 DMAP1 YBX1 IRF4 YY1 SLC30A9 ZNF213 ZNF143 TOB2 LOC105373043 L3MBTL2 ZC3H7B PHF5A EP300 SLC25A17 POLR3H NDUFA6-AS1 XRCC6
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around SNU13 on UCSC Golden Path with GeneCards custom track

Genomic Locations for SNU13 Gene

Genomic Locations for SNU13 Gene
chr22:41,673,930-41,690,504
(GRCh38/hg38)
Size:
16,575 bases
Orientation:
Minus strand
chr22:42,069,934-42,086,508
(GRCh37/hg19)

Genomic View for SNU13 Gene

Genes around SNU13 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SNU13 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SNU13 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SNU13 Gene

Proteins for SNU13 Gene

  • Protein details for SNU13 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P55769-NH2L1_HUMAN
    Recommended name:
    NHP2-like protein 1
    Protein Accession:
    P55769

    Protein attributes for SNU13 Gene

    Size:
    128 amino acids
    Molecular mass:
    14174 Da
    Quaternary structure:
    • Component of the U4/U6-U5 tri-snRNP complex composed of the U4, U6 and U5 snRNAs and at least PRPF3, PRPF4, PRPF6, PRPF8, PRPF31, SNRNP200, TXNL4A, WDR57, SNRNP40, DDX23, CD2BP2, PPIH, NHP2L1, EFTUD2, SART1 and USP39. Interacts with RAD17 and PRPF31.

    Three dimensional structures from OCA and Proteopedia for SNU13 Gene

neXtProt entry for SNU13 Gene

Post-translational modifications for SNU13 Gene

No Post-translational modifications

Other Protein References for SNU13 Gene

No data available for DME Specific Peptides for SNU13 Gene

Domains & Families for SNU13 Gene

Gene Families for SNU13 Gene

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

Graphical View of Domain Structure for InterPro Entry

P55769

UniProtKB/Swiss-Prot:

NH2L1_HUMAN :
  • Belongs to the eukaryotic ribosomal protein eL8 family.
Family:
  • Belongs to the eukaryotic ribosomal protein eL8 family.
genes like me logo Genes that share domains with SNU13: view

Function for SNU13 Gene

Molecular function for SNU13 Gene

UniProtKB/Swiss-Prot Function:
Binds to the 5-stem-loop of U4 snRNA and may play a role in the late stage of spliceosome assembly. The protein undergoes a conformational change upon RNA-binding.

Phenotypes From GWAS Catalog for SNU13 Gene

Gene Ontology (GO) - Molecular Function for SNU13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding HDA,IEA 22658674
GO:0005515 protein binding IPI 10593953
GO:0030515 contributes_to snoRNA binding IDA 17636026
GO:0030621 U4 snRNA binding IDA 11081632
GO:0030622 U4atac snRNA binding IDA 16857676
genes like me logo Genes that share ontologies with SNU13: view
genes like me logo Genes that share phenotypes with SNU13: view

Animal Model Products

Inhibitory RNA Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SNU13 Gene

Localization for SNU13 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SNU13 Gene

Nucleus, nucleolus. Note=Concentrated in the dense fibrillar component of the nucleolus.

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 SNU13 gene
Compartment Confidence
nucleus 5
cytosol 3
extracellular 1

Gene Ontology (GO) - Cellular Components for SNU13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001651 dense fibrillar component IDA 10593953
GO:0005634 nucleus TAS 8978773
GO:0005654 nucleoplasm TAS --
GO:0005681 spliceosomal complex IEA --
GO:0005730 nucleolus IEA,IDA 10593953
genes like me logo Genes that share ontologies with SNU13: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for SNU13 Gene

Pathways & Interactions for SNU13 Gene

genes like me logo Genes that share pathways with SNU13: view

Pathways by source for SNU13 Gene

Gene Ontology (GO) - Biological Process for SNU13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000398 mRNA splicing, via spliceosome TAS --
GO:0000470 maturation of LSU-rRNA IBA --
GO:0000492 box C/D snoRNP assembly IEA --
GO:0006364 rRNA processing TAS --
GO:0006397 mRNA processing IEA --
genes like me logo Genes that share ontologies with SNU13: view

No data available for SIGNOR curated interactions for SNU13 Gene

Drugs & Compounds for SNU13 Gene

(2) Drugs for SNU13 Gene - From: DrugBank

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Alpha-Hydroxy-Beta-Phenyl-Propionic Acid Experimental Pharma Target 0
Anisomycin Experimental Pharma Target JNK agonist, potent and specific 0
genes like me logo Genes that share compounds with SNU13: view

Transcripts for SNU13 Gene

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for SNU13 Gene

No ASD Table

Relevant External Links for SNU13 Gene

GeneLoc Exon Structure for
SNU13
ECgene alternative splicing isoforms for
SNU13

Expression for SNU13 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

NURSA nuclear receptor signaling pathways regulating expression of SNU13 Gene:

SNU13

mRNA Expression by UniProt/SwissProt for SNU13 Gene:

P55769-NH2L1_HUMAN
Tissue specificity: Ubiquitous.

Evidence on tissue expression from TISSUES for SNU13 Gene

  • Nervous system(4.8)
  • Lung(4.7)
  • Liver(4.6)
  • Skin(4.1)
  • Blood(2.9)
  • Eye(2.5)
  • Intestine(2.2)
genes like me logo Genes that share expression patterns with SNU13: view

Primer Products

No data available for mRNA expression in normal human tissues , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for SNU13 Gene

Orthologs for SNU13 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for SNU13 Gene

Organism Taxonomy Gene Similarity Type Details
mouse
(Mus musculus)
Mammalia Gm5616 34
  • 100 (a)
OneToMany
Nhp2l1 34 33
  • 89.84 (n)
OneToMany
Snu13 16
chimpanzee
(Pan troglodytes)
Mammalia NHP2L1 34 33
  • 98.96 (n)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia NHP2L1 34
  • 97 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia NHP2L1 34
  • 96 (a)
OneToOne
dog
(Canis familiaris)
Mammalia NHP2L1 34 33
  • 93.75 (n)
OneToOne
cow
(Bos Taurus)
Mammalia NHP2L1 34 33
  • 90.62 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia LOC100359574 33
  • 89.32 (n)
chicken
(Gallus gallus)
Aves NHP2L1 34 33
  • 79.27 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia NHP2L1 34
  • 87 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia nhp2l1 33
  • 77.86 (n)
MGC75724 33
zebrafish
(Danio rerio)
Actinopterygii nhp2l1a 34
  • 90 (a)
OneToMany
nhp2l1b 34 33
  • 78.12 (n)
OneToMany
-- 33
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.8678 33
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP008163 33
  • 72.58 (n)
fruit fly
(Drosophila melanogaster)
Insecta hoip 34 33
  • 72.44 (n)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea M28.5 33 34
  • 70.83 (n)
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AEL070W 33
  • 65.3 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SNU13 33 34 36
  • 63.66 (n)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0E22529g 33
  • 63.11 (n)
thale cress
(Arabidopsis thaliana)
eudicotyledons AT5G20160 33
  • 68.23 (n)
rice
(Oryza sativa)
Liliopsida Os03g0241200 33
  • 69.53 (n)
Os.12755 33
barley
(Hordeum vulgare)
Liliopsida Hv.12809 33
wheat
(Triticum aestivum)
Liliopsida Ta.12661 33
corn
(Zea mays)
Liliopsida Zm.2052 33
sea squirt
(Ciona savignyi)
Ascidiacea CSA.5606 34
  • 78 (a)
OneToOne
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes snu13 33
  • 63.69 (n)
bread mold
(Neurospora crassa)
Ascomycetes NCU01331 33
  • 62.68 (n)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.4606 33
Species where no ortholog for SNU13 was found in the sources mined by GeneCards:
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • 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)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)

Evolution for SNU13 Gene

ENSEMBL:
Gene Tree for SNU13 (if available)
TreeFam:
Gene Tree for SNU13 (if available)

Paralogs for SNU13 Gene

genes like me logo Genes that share paralogs with SNU13: view

No data available for Paralogs for SNU13 Gene

Variants for SNU13 Gene

Sequence variations from dbSNP and Humsavar for SNU13 Gene

SNP ID Clin Chr 22 pos Variation AA Info Type
rs1000174801 -- 41,688,985(-) T/C genic_upstream_transcript_variant, intron_variant, upstream_transcript_variant
rs1000210108 -- 41,685,704(-) G/A/T genic_downstream_transcript_variant, intron_variant
rs1000255517 -- 41,677,086(-) G/A genic_downstream_transcript_variant, intron_variant
rs1000266051 -- 41,691,448(-) G/T upstream_transcript_variant
rs1000288149 -- 41,677,414(-) A/G genic_downstream_transcript_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for SNU13 Gene

Variant ID Type Subtype PubMed ID
nsv834209 CNV loss 17160897
nsv524585 CNV loss 19592680

Variation tolerance for SNU13 Gene

Residual Variation Intolerance Score: 46.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.98; 20.21% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SNU13 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SNU13

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SNU13 Gene

Disorders for SNU13 Gene

MalaCards: The human disease database

(1) MalaCards diseases for SNU13 Gene - From: GeneCards

Disorder Aliases PubMed IDs
sperm-specific antigen 1
  • ssfa1
- elite association - COSMIC cancer census association via MalaCards
Search SNU13 in MalaCards View complete list of genes associated with diseases
genes like me logo Genes that share disorders with SNU13: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SNU13 Gene

Publications for SNU13 Gene

  1. Cloning and mapping of a human novel cDNA (NHP2L1) that encodes a protein highly homologous to yeast nuclear protein NHP2. (PMID: 8978773) Saito H … Nakamura Y (Cytogenetics and cell genetics 1996) 2 3 4 22 58
  2. Binding of the human Prp31 Nop domain to a composite RNA-protein platform in U4 snRNP. (PMID: 17412961) Liu S … Wahl MC (Science (New York, N.Y.) 2007) 2 3 4 58
  3. Functional implications for a prototypical K-turn binding protein from structural and dynamical studies of 15.5K. (PMID: 18044964) Soss SE … Flynn PF (Biochemistry 2007) 3 4 58
  4. A dynamic scaffold of pre-snoRNP factors facilitates human box C/D snoRNP assembly. (PMID: 17636026) McKeegan KS … Watkins NJ (Molecular and cellular biology 2007) 2 3 58
  5. The network of protein-protein interactions within the human U4/U6.U5 tri-snRNP. (PMID: 16723661) Liu S … Lührmann R (RNA (New York, N.Y.) 2006) 3 4 58

Products for SNU13 Gene

Sources for SNU13 Gene

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