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RN7SK Gene

RNA gene   GIFtS: 22
GCID: GC06P052860

RNA, 7SK Small Nuclear

(Previous names: RNA, 7SK, nuclear)
  See related disease
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Subcategory (RNA class): 7SK RNA

Quality score for this RNA gene is 6

Aliases
RNA, 7SK Small Nuclear1 2
7SK2 5
RNA, 7SK, Nuclear1

External Ids:    HGNC: 100371   Entrez Gene: 1250502   Ensembl: ENSG000002021987   OMIM: 6065155   
ORGUL members:    fRNAdb10:FR296186 FR161330 FR038940 FR217155 FR296186      
NCBI13:NR_001445 X05490 X05490 X04236 AK058127 see all 9    
NONCODE14:u5335 u4718 u4752    
Rfam:RF00100    
RNAdb15:LIT1869 LIT1704    

Export aliases for RN7SK gene to outside databases

Previous GC identifers: GC06U990106 GC06P052907 GC06P052968 GC06P052691


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for RN7SK Gene:
RN7SK (RNA, 7SK small nuclear) is an RNA gene, and is affiliated with the 7SK RNA class. Diseases associated with RN7SK include hiv-1.

Gene Wiki entry for RN7SK (7SK RNA) Gene

fRNAdb sequence ontology for RN7SK:
snRNA - A small nuclear RNA molecule involved in pre-mRNA splicing and processing.

View fRNAdb secondary structures for RN7SK

(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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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Regulatory elements:
   Regulatory transcription factor binding sites in the RN7SK gene promoter:
         POU2F2 (Oct-2.1)   Oct-B1   oct-B2   oct-B3   POU2F2   POU2F2C   HEN1   POU2F1   POU2F1a   POU2F2B   
         Other transcription factors

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Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat RN7SK


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

Entrez Gene cytogenetic band: 6p12.2   Ensembl cytogenetic band:  6p12.2   HGNC cytogenetic band: 6p12.1

RN7SK Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
RN7SK gene location

GeneLoc information about chromosome 6         GeneLoc Exon Structure

GeneLoc location for GC06P052860:  view genomic region     (about GC identifiers)

Start:
52,860,418 bp from pter      End:
52,860,749 bp from pter
Size:
332 bases      Orientation:
plus strand
ORGUL member locations:
Legend (see complete legend)

ORGUL Member Locations for RN7SK

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, 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 Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB: --


(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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HGNC Gene Families:
snRNA: ncRNAs / Small nuclear RNAs

  --

(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Molecular Function:
     Genatlas biochemistry entry for RN7SK:
small nuclear RNA,7SK

Animal Models:
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(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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  --

(SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, 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 Apr 2014 via Entrez Gene).
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Interactions:

    GeneGlobe Interaction Network for RN7SK

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 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,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, and/or QIAGEN )
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4 fRNAdb Secondary structures:


1 Ensembl transcript including schematic representation, and UCSC links where relevant:
ENST00000365328(misc_RNA)
miRNA
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Selected AceView cDNA sequences (see all 71):

AI825755 AA559939 AI654949 AI972281 AI655710 BF475685 AW593405 BE073960 
AI350499 AA828594 BE503281 X04236 NR_001445 BE073961 BE073962 BF992614 
T57040 AV762045 BG223218 BQ376541 BE676926 BE676909 AA654640 CB046250 

GeneLoc Exon Structure


(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™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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Expression evidence for RN7SK:RNAdb

RN7SK expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: --
RN7SK Expression
About this image


RN7SK expression in embryonic tissues and stem cells    About this table
Data from LifeMap, the Embryonic Development and Stem Cells Database
 selected tissues (see all 2) fully expand
 
 Epithelial Cells
         Presumptive Podocytes Podocyte Layer
 
 Kidney (Urinary System)
         Presumptive Podocytes Podocyte Layer
RN7SK Protein expression data from MOPED1, PaxDb2 and MaxQB3 --
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In Situ
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(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)
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This gene was present in the common ancestor of chordates.

Orthologs for RN7SK gene from Selected species (see all 8)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia Rn7sk5 RNA, 7SK, nuclear   --   9 (43.63 cM) 78175303 
chicken
(Gallus gallus)
Aves 7SK6
7SK RNA
96(a)
1 → many
3(87768167-87768495) ENSGALG00000017926
lizard
(Anolis carolinensis)
Reptilia 7SK6
7SK RNA
91(a)
many ↔ many
1(151696142-151696482)
zebrafish
(Danio rerio)
Actinopterygii rn7sk6
RNA, 7SK small nuclear
91(a)
1 → many
13(697630-697951)


ENSEMBL Gene Tree for RN7SK (if available)
TreeFam Gene Tree for RN7SK (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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  --

(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, 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), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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Site Specific Mutation Identification with PCR Assays
Search QIAGEN SeqTarget long-range PCR primers for resequencing RN7SK
DNA2.0 Custom Variant and Variant Library Synthesis for RN7SK

(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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OMIM gene information: 606515    OMIM disorders: --

1 disease for RN7SK:    
About MalaCards
hiv-1


RN7SK for disorders           About GeneDecksing

1 Novoseek inferred disease relationship for RN7SK gene    About this table

Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
immunodeficiency 18.1 1 15169877 (1)


Export disorders for RN7SK gene to outside databases

(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)
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PubMed articles for RN7SK gene, integrated from 10 sources (see all 49):
(articles sorted by number of sources associating them with RN7SK)
    Utopia: connect your pdf to the dynamic
world of online information

  1. 7SK RNA, a non-coding RNA regulating P-TEFb, a general transcription factor. (PubMed id 19246988)1, 3 Diribarne G. and Bensaude O. (RNA Biol 2009)
  2. The conserved 7SK snRNA gene localizes to human chromosome 6 by homolog exclusion probing of somatic cell hybrid RNA. (PubMed id 8139910)1, 3 Driscoll C.T....Maraia R.J. (Nucleic Acids Res. 1994)
  3. Structural analyses of the 7SK ribonucleoprotein (RNP), the most abundant human small RNP of unknown function. (PubMed id 1646389)1, 3 Wassarman D.A. and Steitz J.A. (Mol. Cell. Biol. 1991)
  4. Regulation of two key nuclear enzymatic activities by the 7SK small nuclear RNA. (PubMed id 17381310)1, 9 He W.J....Zhou Q. (Cold Spring Harb. Symp. Quant. Biol. 2006)
  5. A human immunodeficiency virus type 1 Tat-like arginine-rich RNA- binding domain is essential for HEXIM1 to inhibit RNA polymerase II transcription through 7SK snRNA-mediated inactivation of P-TEFb. (PubMed id 15169877)1, 9 Yik J.H.N.... Zhou Q. (Mol. Cell. Biol. 2004)
  6. Phosphorylated positive transcription elongation factor b (P-TEFb) is tagged for inhibition through association with 7SK snRNA. (PubMed id 14627702)1, 9 Chen R....Zhou Q. (J. Biol. Chem. 2004)
  7. Inhibition of P-TEFb (CDK9/Cyclin T) kinase and RNA polymerase II transcription by the coordinated actions of HEXIM1 and 7SK snRNA. (PubMed id 14580347)1, 9 Yik J.H.N.... Zhou Q. (Mol. Cell 2003)
  8. 7SK small nuclear RNA binds to and inhibits the activity of CDK9/cyclin T complexes. (PubMed id 11713533)1, 9 Nguyen V.T....Bensaude O. (Nature 2001)
  9. Recruitment of P-TEFb for stimulation of transcriptional elongation by the bromodomain protein Brd4. (PubMed id 16109377)1, 9 Yang Z.... Zhou Q. (Mol. Cell 2005)
  10. Bromodomain and extra-terminal (BET) bromodomain inhibition activate transcription via transient release of positive transcription elongation factor b (P-TEFb) from 7SK small nuclear ribonucleoprotein. (PubMed id 22952229)1 Bartholomeeusen K....Peterlin B.M. (J. Biol. Chem. 2012)

(in PubMed, OMIM, and NCBI Bookshelf)
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 ANDOR
Aliases
Disorders
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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Entrez Gene: 125050 HGNC: 10037 AceView: RN7SK Ensembl:ENSG00000202198 euGenes: HUgn125050
ECgene: RN7SK H-InvDB: RN7SK

(According to HUGE)
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(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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NameDescription
PharmGKB entry for RN7SK Pharmacogenomics, SNPs, Pathways

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
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Patent Information for RN7SK gene:
Search GeneIP for patents involving RN7SK

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



(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
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