Lnc-TCF24-2:3

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Annotated Information

Transcriptomic Nomeclature

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Function

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Regulation

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Expression

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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

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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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Annotation (From lncRNAdb)

[lnc-TCF24-2:3]

Section	Description
ID	SNHG6
Characteristics	Spliced transcript with U87 snoRNA in second intron. ~0.5kb transcript. Transcriptional start site has characteristics of 5' TOP gene family.
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.
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.
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.
Name	SNHG6: Small nucleolar RNA host gene 6

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