Difference between revisions of "NONHSAT113149"

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==Annotated Information==
 
==Annotated Information==
 
===Name===
 
===Name===
7SK
+
Approved symbol: RN7SK
 +
Approved name: RNA component of 7SK nuclear ribonucleoprotein
 +
HGNC ID: HGNC:10037
 +
Previous names: 7SK, 7SK small nuclear
 +
Alias symbols: 7SK
 +
RefSeq ID: NR_001445
  
 
===Characteristics ===
 
===Characteristics ===

Revision as of 11:47, 30 June 2019

Annotated Information

Name

Approved symbol: RN7SK Approved name: RNA component of 7SK nuclear ribonucleoprotein HGNC ID: HGNC:10037 Previous names: 7SK, 7SK small nuclear Alias symbols: 7SK RefSeq ID: NR_001445

Characteristics

~330 nt in vertebrates*. Transcribed by RNAP III, GC-rich sequence forming conserved secondary structures (especially 3' and 5' stem-loop motifs).

7SK RNA is capped at its 5' end by BCDIN3, a specific methylase methylphosphate capping enzyme (MePCE) ((Jeronimo 2007)).

RNAP II was recently found to bind near 7SK promoter, as well as many other known Pol III genes, suggesting that RNAP II may also play a role in regulating their transcription ((Raha 2010)).

In invertebrates, 7SK homologs may have different sizes (such as >400 nt and ~130 nt in drosophilids and nematodes, respectively). ((Gruber 2008)) ((Marz 2009))

Expression

Nuclear, highly abundant (one of the most abundant small RNAs in vertebrate cells), first isolated from HeLa nuclear extracts, but ubiquitously expressed.

RNA sequencing from 11 humans tissues confirmed ubiquitous high expression of 7SK with expression in some tissues being higher than any mRNA ((Castle 2010)).

Regulation

Please input regulation information here.

Function

Controls RNAP II activity by inhibiting P-TEFb elongation factor, which is a cdk-cyclin kinase that functions as both a general and an HIV-1 Tat-specific transcription factor ((Nguyen 2001)) ((Yang 2001)), with an impact on cell growth and differentiation.

7SK snRNA is a central scaffold that coordinates protein-protein interactions and, by inhibiting P-TEFb kinase-mediated CTD phosphorylation, regulates RNAP II elongation ((Nguyen 2001)). 7SK snRNP (composed of 7SK snRNA, Hexim1, Larp7/Pip7S, and the P-TEFb subunits CycT1 and Cdk9) is not only critical for controlling transcription, but also for regulating alternative splicing coupled to transcription elongation ((Barboric 2009)). It is also essential for vertebrate development ((Barboric 2009)). The 3' end of HIC mRNA has full activity and contains a predicted structure resembling the 3'-terminal hairpin of 7SK that is critical for P-TEFb binding ((Barboric 2009)).

7SK has been found highly enriched in isolated chromatin fractions, which may be related to its role in transcriptional regulation ((Mondal 2010)).

At an early stage of the HIV transcription cycle, elongation is prevented as P-TEFb is recruited to the HIV-1 promoter in a catalytically inactive state bound to the 7SK snRNP and also the Tat trans-activator of transcription protein. The inhibitory 7SK snRNP may be displaced by the nascent TAR HIV RNA that also binds Tat protein, activating P-TEFb kinase and transcriptional elongation ((D'Orso 2010)). Displacement of 7SK may also be performed by cellular RNAs, as indicated by the 3'-untranslated region (~300-nt) of HIC mRNA, which forms complexes with P-TEFb and is necessary and sufficient for stimulation of P-TEFb-dependent transcription of the HIV promoter ((Young 2007)).

7SK RNA also inhibits APOBEC3C deaminase activity and sequesters it to the nucleolus, suggesting broader role for 7SK RNA in regulating key nuclear functions ((He 2007)).

Disease

colon adenocarcinoma [1]

Evolution

Please input evolution information here.

Labs working on this lncRNA

Please input related labs here.

References

  1. Shahriyari L. Effect of normalization methods on the performance of supervised learning algorithms applied to HTSeq-FPKM-UQ data sets: 7SK RNA expression as a predictor of survival in patients with colon adenocarcinoma. Brief Bioinform. 2017 Nov 3. doi: 10.1093/bib/bbx153.

Annotation originally sourced from lncRNAdb.

Basic Information

Transcript ID

NONHSAT113149

Source

NONCODE4.0

Same with

,

Classification

intergenic

Length

332 nt

Genomic location

chr6+:52860418..52860749

Exon number

1

Exons

52860418..52860749

Genome context

Sequence
000001 GGATGTGAGG GCGATCTGGC TGCGACATCT GTCACCCCAT TGATCGCCAG GGTTGATTCG GCTGATCTGG CTGGCTAGGC 000080
000081 GGGTGTCCCC TTCCTCCCTC ACCGCTCCAT GTGCGTCCCT CCCGAAGCTG CGCGCTCGGT CGAAGAGGAC GACCATCCCC 000160
000161 GATAGAGGAG GACCGGTCTT CGGTCAAGGG TATACGAGTA GCTGCGCTCC CCTGCTAGAA CCTCCAAACA AGCTCTCAAG 000240
000241 GTCCATTTGT AGGAGAACGT AGGGTAGTCA AGCTTCCAAG ACTCCAGACA CATCCAAATG AGGCGCTGCA TGTGGCAGTC 000320
000321 TGCCTTTCTT TT
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[XfH-eIV29t-4mEh6oT-XvQAAAAs] 2019-12-12 08:51:06: Fatal exception of type "TypeError"

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