NONHSAT104072
Revision as of 12:06, 6 October 2014 by 111.204.253.116 (talk)
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Contents
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 |
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 |
Annotation (From lncRNAdb)
Section | Description |
---|---|
ID | SNHG4 |
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. |
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 |
Name | SNHG4: Small nucleolar RNA host gene 4 |