NONHSAT104072

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Annotated Information

Name

SNHG4: Small nucleolar RNA host gene 4

Characteristics

Upstream from the Matrin 3 protein coding gene. A number of splice isoforms of SNHG4 exist, some of which join Matrin3 and so act as an upstream initiation site for Matrin 3.

SNHG4 specific isoforms appear to contain the first four SNHG4 exons and differ at the 3' end.

Contains U19 snoRNA in intron 3 (annotated as SNORA74A in Refseq).

Transcriptional start site has characteristics of the 5' TOP gene family.

Function

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Expression

Expressed in a number of adult human tissues.

Shows a nucleoplasmic localisation. In constrast to other SNHG RNA (SNHG1, SNHG3) which are localised in the cytoplasm.

Human SNHG4 isoforms 1&2 were highly stable in B cells (half-life >8 hr), while mouse Snhg4 was highly unstable in mouse 3T3 cells, suggesting differential stability between species (Friedel (2009), Clark (2012)).

Conservation

Likely present in mouse with same relationship with Matrin 3

Disease

myelodysplastic syndrome

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

NONHSAT104072

Source

NONCODE4.0

Same with

,

Classification

intergenic

Length

1100 nt

Genomic location

chr5+:138609441..138615317

Exon number

4

Exons

138609441..138609850,138611810..138611839,138614016..138614097,138614740..138615317

Genome context

Sequence
000001 GCAGCAACGG AAAGGCGCCA CGCTCGTGAG CGGAACCAGC GTTCCGGGGG CGCTCAGTGT GGGCAGGCAG GAAGCCTGGC 000080
000081 TCCACTAGGA CACACAGATT CTCTCCTGAG CAGCTGCGAA CTATGCGCCC CTTCTACCCT TAAGAGATGG GATGGGAGTC 000160
000161 CAACAAACCC AGCCATTGCT CAGACCCCAG CCCTTCTCTC CTCTAAGAAG CAGGTTCACC TCTGCCACCG CACTCGCATT 000240
000241 TTTTTTTTTT TTTAAAGCCC GGCCTTTCCT AGGCGGGGTC AAGGGCCCCG CCCACCGAAG CCACGCCCAG TAGCCGCCCC 000320
000321 GGGGCGGGGT TCCCCTCGGC TCCCGGCTGC CCTTTCCCCT CCGGCCTCTG CCGGTGCTGC TGCGCCCTGC GGAGCTCCGA 000400
000401 ACACGTGCGC AGAGGCTGGC TGTGGCAGAT GCAACTGCAG GATGACTTGA AAGTAGGGCA TCCTTCACCC ATCTGAAGGG 000480
000481 AGGAAATAGT GGCAGGTGAC AGTCTGCATG TGCAGTTTTC AGATGCCTTC ACCTGAATGA CATCTACCTC CATCAGGACC 000560
000561 CCAGATGTCT GACAGCCCTG TGTGACACCA AGATAAGTAA CGTATGTAGT CTTCTTGTCA TGTAGGTCCC AATTAAATTA 000640
000641 CTATAGCTCA GATGGGGGTA GGGGACTTAA AATTATGATG TGAAAAATTA TGTAGAGTAT CAGACTTTTT TTTGGGGGGG 000720
000721 GACGGAGTCT TGCTCAGTTG CCCAGGCTAG AGTACAGTGG CTCGATCTCG GCTCACTGCA ACCTCTGCCT CCTGGGTTCA 000800
000801 AGCGATTCTC CTGCCTCAGC CTCCCGAGTA GCTGGGACTA CAGGCACCTG CCACCATGCC AGGCTAATTT TTTTATTTTA 000880
000881 AGTAGAGACG AGGTTTCACC ATATTGGCCA GGCTGGTCTG AAACTCCTGA CCTTGCGATT TGCCTGCCTT GGCCTCCCAA 000960
000961 AATGCTGGGA TTACAGGTTT TTTTGTTTGT TTTTTGAGAC GGAGTCTCAC TGTCTCCCAG GCTGGAGTGC AATGGCGCAA 001040
001041 TCTCGGCTCA CTACAACCTC TACCTCCTGG GTTCAAGCGA TTCTCCTGCC TCGGCCTCCT
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Internal error - LncRNAWiki

Internal error

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[XfUIXscZLooIfwSBIPn@vwAAAAo] 2019-12-14 16:05:53: Fatal exception of type "TypeError"

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