Difference between revisions of "Lnc-TCF24-2:3"

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===Transcriptomic Nomeclature===
 
===Transcriptomic Nomeclature===
 
Please input transcriptomic nomeclature information here.
 
Please input transcriptomic nomeclature information here.
 
  
 
===Regulation===
 
===Regulation===
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==References==
 
==References==
Please input cited references here.
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[http://www.lncrnadb.org/snhg6/ Annotation originally sourced from lncRNAdb.]
  
 
{{basic|
 
{{basic|
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sequence = <dnaseq>CCTTTCCCGCGCGACCGGCGAGGGAGGAAGAAGCGCGAAGAGCCGTTAGTCATGCCGGTGTGGTGGCGGCGGCGGAGACTGCGGGCCCGTAGCTGGGCTCTGCGAGGTGCAAGAAAGCCTTTGAGGTGAAGGTGTATGAAAGTCATCATAACAGATGTTTTCCAAAAACTTGTAGAAGGTTGTGAAAAAACTACTAGGATCACGCGGCATGTATTGAGCATATAGGTTGCTGTAGATGAATGTTCTTAGCTGTCATGTTTAAAAATACTTCTGCTTCGTTACCTCAAGTGTGGCATGCAGCATTTTGGAAGGAAAATTGAAGACGTGTTCAAGAAAACATGAACAGAAGCAAATGATGAAAATGAGCATTTTACTTGATGTTGATAACATCACAATAAATTATGGAGAAAAATACATATTTGGCTAACTTTTAATTGCTGAACAATAAAGTGTTTTCTTTTAAATCAACTCT</dnaseq>|
 
sequence = <dnaseq>CCTTTCCCGCGCGACCGGCGAGGGAGGAAGAAGCGCGAAGAGCCGTTAGTCATGCCGGTGTGGTGGCGGCGGCGGAGACTGCGGGCCCGTAGCTGGGCTCTGCGAGGTGCAAGAAAGCCTTTGAGGTGAAGGTGTATGAAAGTCATCATAACAGATGTTTTCCAAAAACTTGTAGAAGGTTGTGAAAAAACTACTAGGATCACGCGGCATGTATTGAGCATATAGGTTGCTGTAGATGAATGTTCTTAGCTGTCATGTTTAAAAATACTTCTGCTTCGTTACCTCAAGTGTGGCATGCAGCATTTTGGAAGGAAAATTGAAGACGTGTTCAAGAAAACATGAACAGAAGCAAATGATGAAAATGAGCATTTTACTTGATGTTGATAACATCACAATAAATTATGGAGAAAAATACATATTTGGCTAACTTTTAATTGCTGAACAATAAAGTGTTTTCTTTTAAATCAACTCT</dnaseq>|
 
}}
 
}}
[[Category:Intergenic]]
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[[Category:Intergenic]][[Category:lnc-TCF24-2]][[Category:Transcripts]]

Latest revision as of 03:53, 26 August 2015

Please input one-sentence summary here.

Annotated Information

Name

SNHG6: Small nucleolar RNA host gene 6

Characteristics

Spliced transcript with U87 snoRNA in second intron. ~0.5kb transcript. Transcriptional start site has characteristics of 5' TOP gene family.

Function

Unknown, however the authors point out that 5' TOP family genes are important for translation and that ribosomal associated SNHGs could be involved in this process as well.

Expression

Broad expression in human and mouse tissues. Localises mostly to the cytoplasm. Human transcript found to show greater stability that SNHG1 in Hela cells (Makarova (2005)). Also found to be quite stable in human B cells with a half-life of 7 hr, while mouse Snhg6 was significantly less stable (half-life 2.2hrs in 3T3 cells), suggesting the transcripts may have different stabilities between species (Friedel (2009), Clark (2012)). Minority of SNHG6 associates with monosomes. Blocking translation led to a very modest increase in SNHG6 levels, in contrast to SNHG1 (which showed a large increase in transcript level) suggesting it is not very sensitive to nonsense mediated decay. This may help explain its increased stability.

Conservation

Host gene sequence shows more conservation between species than other SNHG RNAs with conservation similar to levels of mRNA 3'UTRs. Conserved between human, mouse, rat and dog.

Misc

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Transcriptomic Nomeclature

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Regulation

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Allelic Information and Variation

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Evolution

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Labs working on this lncRNA

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References

Annotation originally sourced from lncRNAdb.

Basic Information

Transcript ID

lnc-TCF24-2:3

Source

LNCipedia2.1

Same with

,

Classification

intergenic

Length

472 nt

Genomic location

chr8-:67834165..67837777

Exon number

4

Exons

67834165..67834349,67834559..67834627,67834849..67834960,67837672..67837777

Genome context

Sequence
000001 CCTTTCCCGC GCGACCGGCG AGGGAGGAAG AAGCGCGAAG AGCCGTTAGT CATGCCGGTG TGGTGGCGGC GGCGGAGACT 000080
000081 GCGGGCCCGT AGCTGGGCTC TGCGAGGTGC AAGAAAGCCT TTGAGGTGAA GGTGTATGAA AGTCATCATA ACAGATGTTT 000160
000161 TCCAAAAACT TGTAGAAGGT TGTGAAAAAA CTACTAGGAT CACGCGGCAT GTATTGAGCA TATAGGTTGC TGTAGATGAA 000240
000241 TGTTCTTAGC TGTCATGTTT AAAAATACTT CTGCTTCGTT ACCTCAAGTG TGGCATGCAG CATTTTGGAA GGAAAATTGA 000320
000321 AGACGTGTTC AAGAAAACAT GAACAGAAGC AAATGATGAA AATGAGCATT TTACTTGATG TTGATAACAT CACAATAAAT 000400
000401 TATGGAGAAA AATACATATT TGGCTAACTT TTAATTGCTG AACAATAAAG TGTTTTCTTT TAAATCAACT CT
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