Difference between revisions of "NONHSAT021826"
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SNHG1: Small nucleolar RNA host gene 1. | SNHG1: Small nucleolar RNA host gene 1. | ||
| − | UHG | + | Alias symbols : UHG, NCRNA00057, LINC00057, lncRNA16 |
===Characteristics=== | ===Characteristics=== | ||
Spliced transcript with a number of short exons (>40bp) and snoRNA containing introns [http://www.ncbi.nlm.nih.gov/pubmed/8559254 (Tycowski (1996))].<br> Transcriptional start site has characteristics of 5' TOP gene family [http://www.ncbi.nlm.nih.gov/pubmed/8559254 (Tycowski (1996))].<br> ~1.1kb transcript in human [http://www.ncbi.nlm.nih.gov/pubmed/8559254 (Tycowski (1996))].<br> Contains 8 (maybe 9) snoRNAs in human, 8 in mouse [http://www.ncbi.nlm.nih.gov/pubmed/8559254 (Tycowski (1996))]. | Spliced transcript with a number of short exons (>40bp) and snoRNA containing introns [http://www.ncbi.nlm.nih.gov/pubmed/8559254 (Tycowski (1996))].<br> Transcriptional start site has characteristics of 5' TOP gene family [http://www.ncbi.nlm.nih.gov/pubmed/8559254 (Tycowski (1996))].<br> ~1.1kb transcript in human [http://www.ncbi.nlm.nih.gov/pubmed/8559254 (Tycowski (1996))].<br> Contains 8 (maybe 9) snoRNAs in human, 8 in mouse [http://www.ncbi.nlm.nih.gov/pubmed/8559254 (Tycowski (1996))]. | ||
| + | |||
| + | ===Function=== | ||
| + | Knockdown of SNHG1 inhibited proliferation of PC9 cells in vitro and also inhibited tumor growth in xenograft mouse models. Overexpression of SNHG1 promoted the proliferation of A549 cells in vitro and also promoted tumor growth in xenograft mouse models. Specifically, SNHG1 promoted G2/M transition by regulating cyclin B1 transcription([http://www.ncbi.nlm.nih.gov/pubmed/27999202 (Zhu 2017)]). | ||
===Disease=== | ===Disease=== | ||
| − | + | Gastric cancer | |
| − | + | Early-stage lung cancer([http://www.ncbi.nlm.nih.gov/pubmed/27999202 (Zhu 2017)]) | |
===Expression=== | ===Expression=== | ||
Localised to the cytoplasm and associates with ribosomes ([http://www.ncbi.nlm.nih.gov/pubmed/9671460 (Pelczar 1998)]). | Localised to the cytoplasm and associates with ribosomes ([http://www.ncbi.nlm.nih.gov/pubmed/9671460 (Pelczar 1998)]). | ||
| − | RNA unstable in both human and mouse cells ([http://www.ncbi.nlm.nih.gov/pubmed/8559254 (Tycowski 1996)], [http://www.ncbi.nlm.nih.gov/pubmed/19561200 (Friedel 2009)], [http://www.ncbi.nlm.nih.gov/pubmed/22406755 (Clark 2012)]), can be stabilised by inhibition of protein synthesis. This suggests SNHG1 may be sensitive to nonsense mediated decay and could be therefore be "translated" but perhaps only to degrade it ([http://www.ncbi.nlm.nih.gov/pubmed/8559254 (Tycowski 1996)]). | + | RNA unstable in both human and mouse cells ([http://www.ncbi.nlm.nih.gov/pubmed/8559254 (Tycowski 1996)], [http://www.ncbi.nlm.nih.gov/pubmed/19561200 (Friedel 2009)], [http://www.ncbi.nlm.nih.gov/pubmed/22406755 (Clark 2012)]), can be stabilised by inhibition of protein synthesis. This suggests SNHG1 may be sensitive to nonsense-mediated decay and could be therefore be "translated" but perhaps only to degrade it ([http://www.ncbi.nlm.nih.gov/pubmed/8559254 (Tycowski 1996)]). |
Up-regulated during lineage restriction of neural stem cells into bipotent neuronal/oligodendrocyte progenitors in vitro ([http://www.ncbi.nlm.nih.gov/pubmed/20137068 (Mercer 2010)]). | Up-regulated during lineage restriction of neural stem cells into bipotent neuronal/oligodendrocyte progenitors in vitro ([http://www.ncbi.nlm.nih.gov/pubmed/20137068 (Mercer 2010)]). | ||
| + | SNHG1 is up-regulated in gastric cancer[http://www.ncbi.nlm.nih.gov/pubmed/23801869 (Cao 2013)]). | ||
| + | |||
| + | SNHG1 was highly expressed in the lung cancer tissues and plasma and was | ||
| + | detected at different stages of the disease, including the early stage([http://www.ncbi.nlm.nih.gov/pubmed/27999202 (Zhu 2017)]). | ||
| + | {| class='wikitable' style="text-align:center" | ||
| + | |- | ||
| + | ! | Experiment | ||
| + | ! | Forward primer | ||
| + | ! | Reverse primer | ||
| + | |- | ||
| + | | rowspan="1"|Quantitative real-time PCR | ||
| + | | | 5'-GATGACAGTCTGCCTCTATCTTAC- 3' | ||
| + | | | 5'-CTTTGAGCCAAGCAGGTTATTG- 3'([http://www.ncbi.nlm.nih.gov/pubmed/27999202 (Zhu 2017)]) | ||
| + | |} | ||
===Conservation=== | ===Conservation=== | ||
Mouse SNHG1 is in a syntenic position with the human host gene. However, there is little conservation of exonic sequence compared to intronic snoRNA sequence ([http://www.ncbi.nlm.nih.gov/pubmed/8559254 Tycowski (1996)], [http://www.ncbi.nlm.nih.gov/pubmed/17468437 Tanaka-Fujita (2007)]). | Mouse SNHG1 is in a syntenic position with the human host gene. However, there is little conservation of exonic sequence compared to intronic snoRNA sequence ([http://www.ncbi.nlm.nih.gov/pubmed/8559254 Tycowski (1996)], [http://www.ncbi.nlm.nih.gov/pubmed/17468437 Tanaka-Fujita (2007)]). | ||
Revision as of 08:13, 2 August 2019
Please input one-sentence summary here.
Contents
Annotated Information
Name
SNHG1: Small nucleolar RNA host gene 1.
Alias symbols : UHG, NCRNA00057, LINC00057, lncRNA16
Characteristics
Spliced transcript with a number of short exons (>40bp) and snoRNA containing introns (Tycowski (1996)).
Transcriptional start site has characteristics of 5' TOP gene family (Tycowski (1996)).
~1.1kb transcript in human (Tycowski (1996)).
Contains 8 (maybe 9) snoRNAs in human, 8 in mouse (Tycowski (1996)).
Function
Knockdown of SNHG1 inhibited proliferation of PC9 cells in vitro and also inhibited tumor growth in xenograft mouse models. Overexpression of SNHG1 promoted the proliferation of A549 cells in vitro and also promoted tumor growth in xenograft mouse models. Specifically, SNHG1 promoted G2/M transition by regulating cyclin B1 transcription((Zhu 2017)).
Disease
Gastric cancer Early-stage lung cancer((Zhu 2017))
Expression
Localised to the cytoplasm and associates with ribosomes ((Pelczar 1998)).
RNA unstable in both human and mouse cells ((Tycowski 1996), (Friedel 2009), (Clark 2012)), can be stabilised by inhibition of protein synthesis. This suggests SNHG1 may be sensitive to nonsense-mediated decay and could be therefore be "translated" but perhaps only to degrade it ((Tycowski 1996)).
Up-regulated during lineage restriction of neural stem cells into bipotent neuronal/oligodendrocyte progenitors in vitro ((Mercer 2010)).
SNHG1 is up-regulated in gastric cancer(Cao 2013)).
SNHG1 was highly expressed in the lung cancer tissues and plasma and was detected at different stages of the disease, including the early stage((Zhu 2017)).
| Experiment | Forward primer | Reverse primer |
|---|---|---|
| Quantitative real-time PCR | 5'-GATGACAGTCTGCCTCTATCTTAC- 3' | 5'-CTTTGAGCCAAGCAGGTTATTG- 3'((Zhu 2017)) |
Conservation
Mouse SNHG1 is in a syntenic position with the human host gene. However, there is little conservation of exonic sequence compared to intronic snoRNA sequence (Tycowski (1996), Tanaka-Fujita (2007)).
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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You can also add sub-section(s) at will.
Labs working on this lncRNA
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References
Annotation originally sourced from lncRNAdb.
Basic Information
| Transcript ID |
NONHSAT021826 |
| Source |
NONCODE4.0 |
| Same with |
, |
| Classification |
intergenic |
| Length |
1134 nt |
| Genomic location |
chr11-:62619460..62623360 |
| Exon number |
11 |
| Exons |
62619460..62620153,62620283..62620311,62620547..62620587,62621024..62621062,62621273..62621305,62621490..62621536,62621991..62622023,62622360..62622410,62622605..62622688,62622896..62622938,62623337..62623360 |
| Genome context |
|
| Sequence |
000001 GTTCTCATTT TTCTACTGCT CGTGGATTTA CGCGCACGTT GGAACCGAAG AGAGCTCTGT TGTTGCAATG TTCAGCCCAC 000080
000081 AAGAGCTTAC TGGTGAAGGA ATGGGACAAG ACCCATCTTT ATGCAAAGCC AGCGTTACAG TAATGTTCCA GCATCTCATA 000160 000161 ATCTATCCTG GGGAATTCAG CTGCCTCCCA GGGTGAATAC AGGTATTCCT GATGACAGTC TGCCTCTATC TTACAGAGCA 000240 000241 GCTTGTTGCT ATATACCATT GAAAAGCCTT CAGAGCTGAG AGGTACTACT AACCAATAAC CTGCTTGGCT CAAAGGGCCA 000320 000321 GCACCTTCTC TCTAAAGCCC AAGAGGAGTT TGAGGAAAAC TAGGTGTCTG TGTTCACTCC AGGCTGAAGT TACAGGTCTG 000400 000401 AGCAAATAAG GTGTATAAAA AATGGAATCT GTCTTGGAGG ACATCAGAAG GTGAATTTTC CAAGTTCTTG GACAACCTAG 000480 000481 CTGTTGAAAA GCTTTCTGGG TTTGGGGGGT ATTTCAGATG TACCTTAAAG TGTTAGCAGA CACAGATTAA GACACTGGGA 000560 000561 GCCAATGAAA CAGCAGTTGA GGGTTTGCTG TGTATCACAT TTCTGTATTT TATCACCCCC TTCCTGCAAC ATTATTTATC 000640 000641 TGGAATCTAC CTGCCCTTTT GTTTTTTAGA TACAAGGGCT TGGTTTTGTT ACCCAGGCTG GTTTCAAGGC CATAGCTTTA 000720 000721 AGAGATCCTC TCACCACAGA TTTCCAAAGT GCTGGGATTG CAGGTGTGAT TCATGGCACC CAGACTTTGC TGCCTTTCTT 000800 000801 ACATGATCCA GGCCCAGAAC CCAAACTCAG GCACTGTATA GATGACCACT TTCGTAAACT ACTGACCTAG CTTGTTGCCA 000880 000881 ATTGTTGATT GAACTTCCCA TAACTCCACT TCGTGTCTGT TCCTCTGTAT ACAGCCACCT TCTGTTCCCG TCATGAGCCT 000960 000961 TTAGGTCTCC ATTTGCATAT TGCAAATACT ATGTTCCATG TAGGTAGCTC ATTCAGGGCC TTGCTCTTCA CTTCAAAAAA 001040 001041 GGTTCCCTTG AGGACTGGCT GTCAATTTGT GTTGCTGTGT TGGTTGTTGA TGAAAATAAT AAAATGATTG ATTACATAAA 001120 001121 AAAAAAAAAA AAAA |
