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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

RNU1-1 Gene

RNA gene   GIFtS: 16
GCID: GC01M016841

RNA, U1 small nuclear 1

(Previous names: RNA, U1G4 small nuclear, RNA, U1A3 small nuclear, RNA,...)
(Previous symbols: RNU1, RNU1G4, RNU1A3, RNU1A)
  Search for RNU1-1
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our new
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Biological research products
for RNU1-1    

Aliases
for RNU1-1 gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section
Subcategory (RNA class): snRNA

Quality score for this RNA gene is 5

Aliases
RNA, U1 Small Nuclear 11 2     Rnu1a11 2
HSD11 2     U11 2
HU1-11 2     U1A11 2
RNU11 2     RNA, U1A Small Nuclear1
RNU1A1 2     RNA, U1A3 Small Nuclear1
RNU1A31 2     RNA, U1G4 Small Nuclear1
RNU1G41 2     

External Ids:    HGNC: 101201   Entrez Gene: 268712   Ensembl: ENSG000002066527   
ORGUL members:    fRNAdb10:FR065763 FR005262 FR067322 FR135896 FR249497      
NCBI:AK026936 M14586 M14385 M14386 M14587 see all 10    
NONCODE:u4044 u3829    
Rfam:RF00003    

Export aliases for RNU1-1 gene to outside databases

Previous GC identifer: GC01U902388


Summaries
for RNU1-1 gene

(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section
fRNAdb sequence ontology for RNU1-1:
U1_snRNA - U1 is a small nuclear RNA (snRNA) component of the spliceosome (involved in pre-mRNA splicing). Its 5' end forms complementary base pairs with the 5' splice junction, thus defining the 5' donor site of an intron. There are significant differences in sequence and secondary structure between metazoan and yeast U1 snRNAs, the latter being much longer (568 nucleotides as compared to 164 nucleotides in human). Nevertheless, secondary structure predictions suggest that all U1 snRNAs share a 'common core' consisting of helices I, II, the proximal region of III, and IV.

View fRNAdb secondary structures for RNU1-1

Genomic Views
for RNU1-1 gene

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
 Regulatory elements:
   Search SABiosciences Regulatory transcription factor binding sites for RNU1-1
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search SABiosciences Chromatin IP Primers for RNU1-1

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat RNU1-1


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 1p36.1   Ensembl cytogenetic band:  1p36.13   HGNC cytogenetic band: 1p36.13

RNU1-1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
RNU1-1 gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01M016841:  view genomic region     (about GC identifiers)

Start:
 16,840,617 bp from pter      End:
 16,840,780 bp from pter
Size:
 164 bases      Orientation:
 minus strand

Proteins
for RNU1-1 gene

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section
UniProtKB: --

Protein Domains /
Families
for RNU1-1 gene

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section
   --

Function
for RNU1-1 gene

(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
bound targets from SABiosciences, miRNA Gene Targets from miRTarBase shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
About This Section
miRNA
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Inhib. RNA
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In Situ Assay
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Pathways & Interactions
for RNU1-1 gene

(Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene).
About This Section

Unified GeneCards pathways  About this table 
See pathways by source

Super-pathwaycontained gene-specific pathways
1Spliceosomal Splicing Cycle
Spliceosomal Splicing Cycle1.00

1 Downloadable PowerPoint Slide of QIAGEN Pathway Central Maps for RNU1-1
    Spliceosomal Splicing Cycle


Interactions:

    Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for RNU1-1

Drugs & Compounds
for RNU1-1 gene

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
About This Section
Browse Small Molecules at EMD Millipore
Browse drugs & compounds from Enzo Life Sciences

Browse Tocris compounds for RNU1-1
Search CenterWatch for drugs/clinical trials and news about RNU1-1 

Transcripts
for RNU1-1 gene

(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from EMD Millipore,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
About This Section
 5/6 fRNAdb Secondary structures (see all 6):


1 Ensembl transcript including schematic representation, and UCSC links where relevant:
ENST00000383925(snRNA)

miRNA
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Inhib. RNA
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Browse OriGene siRNA
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Clone
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Primer
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GeneLoc Exon Structure


Expression
for RNU1-1 gene

(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section

Expression evidence for RNU1-1:none

RNU1-1 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: --

Microarray
RNAseq (Illumina Body Map)
(100×FPKM)½
SAGE (Serial Analysis of Gene Expression)
About this image    SABiosciences Custom PCR Arrays for RNU1-1
Primer
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In Situ
Assay Products: 
 		Search Advanced Cell Diagnostics for RNAscope RNA in situ hybridization assays for RNU1-1

Orthologs
for RNU1-1 gene

(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
About This Section
   --

ENSEMBL Gene Tree for RNU1-1 (if available)
TreeFam Gene Tree for RNU1-1 (if available) 

Paralogs
for RNU1-1 gene

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
Paralogs for RNU1-1 gene
RNU1-52  RNU1-16P2  ENSG000002073222  ENSG000002008852  ENSG000002521352  ENSG000002024962  ENSG000002385542  ENSG000002124562  
ENSG000002067912  RNU1-12P2  ENSG000002016162  ENSG000002011702  ENSG000002011422  ENSG000002007312  ENSG000002021672  ENSG000002068352  
ENSG000002003382  ENSG000002020772  ENSG000002071822  RNU1-17P2  ENSG000002069172  ENSG000002016992  ENSG000002008072  ENSG000002075012  
ENSG000002126052  ENSG000002524912  ENSG000002519162  ENSG000002019762  ENSG000002526252  ENSG000002066292  ENSG000002021252  ENSG000002388332  
RNU1-15P2  ENSG000001997732  RNU1-19P2  ENSG000002072052  ENSG000002071102  ENSG000002066872  ENSG000002019222  ENSG000001996522  
ENSG000001998362  ENSG000002388982  RNU1-20P2  ENSG000002024082  RNU1-62  RNU1-14P2  ENSG000002522092  ENSG000002521662  
ENSG000002069682  ENSG000001993612  ENSG000002124732  ENSG000002121532  ENSG000002073402  ENSG000001998052  ENSG000002020002  ENSG000001998462  
ENSG000002012712  RNU1-13P2  ENSG000002126092  ENSG000002023132  ENSG000002009032  ENSG000001998792  ENSG000002390232  ENSG000002529252  
RNU1-92  ENSG000001992832  ENSG000002023172  RNU1-32  ENSG000002011192  ENSG000002015582  RNU1-82  ENSG000002528422  
ENSG000002520992  ENSG000002526812  ENSG000001946472  RNU1-42  ENSG000002069082  ENSG000002015742  ENSG000002003402  ENSG000002519702  
ENSG000002071542  ENSG000002391942  ENSG000002002962  ENSG000002007892  ENSG000002121722  ENSG000002523112  ENSG000002519172  RNU1-18P2  
ENSG000002530002  ENSG000002022152  ENSG000002066982  ENSG000002125442  ENSG000002007452  ENSG000001994972  ENSG000002012912  ENSG000002009972  
ENSG000002071062  ENSG000002071752  ENSG000001994692  ENSG000002072202  ENSG000002005972  ENSG000002073492  ENSG000002124242  RNU1-72  
ENSG000002525132  ENSG000002011052  ENSG000001996872  ENSG000002068202  ENSG000002021992  ENSG000002529902  ENSG000002068282  ENSG000002011832  
ENSG000002019102  ENSG000002530892  ENSG000001995542  ENSG000002070562  ENSG000002524262  RNU1-22P2  ENSG000002521052  ENSG000001994882  
ENSG000002125502  ENSG000002121702  ENSG000001942972  RNU1-21P2  ENSG000002528262  RNU1-23P2  ENSG000002073392  ENSG000002014932  
ENSG000002384212  ENSG000002008002  ENSG000002072012  ENSG000002017372  ENSG000002010332  ENSG000002066242  ENSG000002528502  ENSG000002023802  
RNU1-10P2  ENSG000002066942  RNU1-24P2  ENSG000002525612  RNU1-11P2  RNU1-22  ENSG000002009752  ENSG000001994262  

RNU1-1 for paralogs           About GeneDecksing



Genomic Variants
for RNU1-1 gene

(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section

10/150 NCBI SNPs in RNU1-1 are shown (see all 150)     About this table
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance		Chr 1 posSequence#AA
Chg		TypeMore#Allele
freq		PopTotal
sample		More
----------
rs66038721,2
C,F,A--16840131(+) CCCAAC/TGGGGA 1 -- ds50011Minor allele frequency- T:0.50NA 4
rs94396401,2
C,F,A--16840133(+) CAACGG/TGGACA 1 -- ds50014Minor allele frequency- T:0.44NA CSA 9
rs1478912901,2
--16840173(+) CCAGAA/GAACTG 1 -- ds50010--------
rs38723771,2
C,A,H--16840223(+) ACACAC/TTCCCC 1 -- ds50010--------
rs115800881,2
C,F,H--16840227(+) ATTCCG/CCGCTA 1 -- ds50012Minor allele frequency- C:0.50NA 4
rs94396181,2
C,F,A--16840271(+) CGCTTG/CGAAGC 1 -- ds50013Minor allele frequency- C:0.33NA 6
rs1143733141,2
C--16840304(+) GGGGGC/GTAGGG 1 -- ds50010--------
rs603671641,2
C,F,--16840317(+) AAACAG/CGAAGA 1 -- ds50012Minor allele frequency- C:0.50WA CSA 4
rs1399431641,2
--16840331(+) CACAC-/AGG   
  GTGAGAAGGGT 		1 -- ds50010--------
rs286693351,2
F--16840420(+) TTCACA/C/GATAGC 1 -- ds50013NA 6

HapMap Linkage Disequilibrium report for RNU1-1 (16840617 - 16840780 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
      Database of Genomic Variants (DGV) variations for RNU1-1: --

SABiosciences Cancer Mutation PCR Assays
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Disorders / Diseases
for RNU1-1 gene

(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
About This Section
   --

Publications
for RNU1-1 gene

(in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
About This Section

PubMed articles for RNU1-1 gene, integrated from 9 sources (see all 15):
(articles sorted by number of sources associating them with RNU1-1)		    Utopia: connect your pdf to the dynamic
world of online information

  1. Complex role of the beta 2-beta 3 loop in the interaction of U1A with U1 hairpin II RNA. (PubMed id 12082087)1, 3 Katsamba P.S....Laird-Offringa I.A. (2002)
  2. Implication of the SMN complex in the biogenesis and s teady state level of the signal recognition particle. (PubMed id 23221635)1 Piazzon N....Massenet S. (2013)
  3. U1 snRNP determines mRNA length and regulates isoform expression. (PubMed id 22770214)1 Berg M.G....Dreyfuss G. (2012)
  4. U1 snRNA directly interacts with polypyrimidine tract -binding protein during splicing repression. (PubMed id 21362553)1 Sharma S....Black D.L. (2011)
  5. Composition and three-dimensional EM structure of double affinity-purified, human prespliceosomal A complexes. (PubMed id 17332742)1 Behzadnia N.... Luehrmann R. (2007)
  6. Human U1 small nuclear RNA genes: extensive conservation of flanking sequences suggests cycles of gene amplification and transposition. (PubMed id 3837185)1 Bernstein L.B....Weiner A.M. (1985)
  7. True genes for human U1 small nuclear RNA. Copy number, polymorphism, and methylation. (PubMed id 6198328)1 Lund E. and Dahlberg J.E. (1984)
  8. Human U1 loci: genes for human U1 RNA have dramatically similar genomic environments. (PubMed id 6179629)1 Manser T. and Gesteland R.F. (1982)
  9. (PubMed id 9016512)10 
  10. (PubMed id 2405391)10 

External Searches for RNU1-1 gene

(in PubMed, OMIM, and NCBI Bookshelf)
About This Section
 ANDOR
Aliases
Free Text  
  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

Genome Databases showing RNU1-1 gene

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
About This Section
Entrez Gene: 26871 HGNC: 10120 Ensembl:ENSG00000206652 euGenes: HUgn26871 ECgene: RNU1-1
H-InvDB: RNU1-1

Other Databases showing RNU1-1 gene

(According to HUGE)
About This Section
   --

Specialized Databases showing RNU1-1 gene

(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
NameDescription
PharmGKB entry for RNU1-1 Pharmacogenomics, SNPs, Pathways

Intellectual Property
for RNU1-1 gene

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
About This Section
Patent Information for RNU1-1 gene:
Search GeneIP for patents involving RNU1-1

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



Products
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GeneCards Homepage - Last full update: 18 Mar 2013 - Incrementals: 21 Mar 2013 , 15 Apr 2013 , 26 Apr 2013

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