Difference between revisions of "NONHSAT024403"
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==Annotated Information==
===Transcriptomic Nomeclature===
Please input transcriptomic nomeclature information here.
===Functio...") |
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==Annotated Information== | ==Annotated Information== | ||
+ | ===Name=== | ||
+ | BACE1 antisense RNA | ||
+ | |||
+ | ===Characteristics=== | ||
+ | ~2 kb; two splice variants were identified for human and mouse BACE1-AS. Transcribed from an intron of the beta-secretase-1 (BACE1) gene in antisense direction it also completely overlapps exon 6 of BACE-1 [http://www.ncbi.nlm.nih.gov/pubmed/18587408 (Faghihi (2008))]. | ||
+ | |||
+ | ===Function=== | ||
+ | BACE1AS expression is elevated in Alzheimers disease [http://www.ncbi.nlm.nih.gov/pubmed/18587408 (Faghihi (2008))]. It was shown to regulate BACE1 mRNA and protein expression in vitro and in vivo ie: over-expression, shRNA and siRNA knockdown of BACE1AS affected BACE1 expression, influencing amyloid-beta 1-42 levels [http://www.ncbi.nlm.nih.gov/pubmed/18587408 (Faghihi (2008))]. It was proposed that BACE1-AS and BACE1 form an RNA duplex and this increases the stability of BACE1 [http://www.ncbi.nlm.nih.gov/pubmed/18587408 (Faghihi (2008))]. More recently, it was suggested that BACE1AS may prevent translational repression of BACE1 mRNA by miR-485-5p via masking the binding site for the microRNA. Supporting this hypothesis, BACE1AS over-expression prevented miRNA-induced suppression [http://www.ncbi.nlm.nih.gov/pubmed/20507594 (Faghihi (2010))]. Expression of BACE1-AS as well as miR-485-5p are dysregulated in RNA samples from Alzheimer's disease subjects compared to control individuals [http://www.ncbi.nlm.nih.gov/pubmed/20507594 (Faghihi (2010))]. BACE1-AS may also be involved in sporadic inclusion-body myositis (s-IBM), whose muscle-fiber phenotype shares molecular similarities with Alzheimer-disease brain (including increased BACE1 protein). BACE1-AS and BACE1 transcripts are significantly increased in s-IBM, and experimental induction of endoplasmic reticulum (ER) stress increased both BACE1-AS and BACE1 transcripts. These results suggest that ER stress and increased BACE1-AS expression may be involved in s-IBM [http://www.ncbi.nlm.nih.gov/pubmed/20236612 (Nogalska (2010))]. | ||
+ | |||
+ | ===Expression=== | ||
+ | BACE1 and BACE1AS are co-expressed in a wide range of tissues and cell lines in mice and humans. BACE1 mRNA expression levels are higher than BACE1-AS levels across all tissues examined, except in Alzheimer's disease (AD) where, in contrast, BACE1-AS is expressed at a higher level in brain. Bace1 and Bace1-AS transcripts are also observed in various regions of the mouse brain ([http://www.ncbi.nlm.nih.gov/pubmed/18587408 Faghihi (2008)], [http://www.ncbi.nlm.nih.gov/pubmed/20507594 Faghihi (2010)]). Several cell stressors, such as high temperature, serum starvation, amyloid-beta 1-42, H2O2 and high glucose, specifically increase BACE1-AS RNA and BACE1 protein levels [http://www.ncbi.nlm.nih.gov/pubmed/18587408 (Faghihi (2008))]. Showed increased expression in sporadic inclusion-body myositis (s-IBM) muscle fibers (possibly caused by endoplasmic reticulum stress). Nevertheless, unlike in AD and AD-transgenic mouse brain samples in which BACE1-AS transcript was increased more than the sense BACE1 transcript , in s-IBM muscle biopsies the reversed was found [http://www.ncbi.nlm.nih.gov/pubmed/20236612 (Nogalska (2010))]. Mouse RNA stability was very close to median for lncRNAs, with a half-life 3.6 hr in N2A (neuroblastoma) cells [http://www.ncbi.nlm.nih.gov/pubmed/22406755 (Clark (2012))]. | ||
+ | |||
+ | ===Conservation=== | ||
+ | BACE1-AS transcript has been identified in mouse and humans, with a conserved association with BACE1 across species [http://www.ncbi.nlm.nih.gov/pubmed/18587408 (Faghihi (2008))]. | ||
+ | |||
+ | ===Misc=== | ||
+ | Mouse AK078885 and human CB960709 full-length clones are unspliced and are ~1.2kb- and 798b-long, but two spliced variants were extended by RACE by Faghini et al., 2008. | ||
+ | |||
===Transcriptomic Nomeclature=== | ===Transcriptomic Nomeclature=== | ||
Please input transcriptomic nomeclature information here. | Please input transcriptomic nomeclature information here. | ||
− | |||
− | |||
− | |||
===Regulation=== | ===Regulation=== | ||
Please input regulation information here. | Please input regulation information here. | ||
− | |||
− | |||
− | |||
===Allelic Information and Variation=== | ===Allelic Information and Variation=== | ||
Line 21: | Line 33: | ||
You can also add sub-section(s) at will. | You can also add sub-section(s) at will. | ||
− | |||
==Labs working on this lncRNA== | ==Labs working on this lncRNA== | ||
Please input related labs here. | Please input related labs here. | ||
==References== | ==References== | ||
− | + | [http://www.lncrnadb.org/BACE1AS/ Annotation originally sourced from lncRNAdb.] | |
{{basic| | {{basic| | ||
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sequence = <dnaseq>TCTAGCGAGGTGACAGCGTAGAACCAGTACAGGCGTGCGCCACCACACCCAGCTAATTTTTGTACTTTTAGTAGAGATGGGATTTCACCCTGTTGGTCAGGCTGGTCTTGAACTCCTGACCTAGTGATCTGCCCACCTTGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCACGCCTGGCTAGGGGAAGAGTGTTTTAAGAGCTCTGAGTAGAAGGGTCTAAGTGCAGACATCTTGGCTGTTGCTGAAGAATGTGACTCTCACCGCCTCCCTCTGACACTGTACCATCTCTTTTACCCCCATCCTTAGTCCACTCACGGAGGAGGCTGCCTTGATGGATTTGACTGCAGCTTCAAACACTTTCTTGGGCAAACGAAGGTTGGTGGTGCCACTGTCCACAATGCTCTTGTCATAGTTGTACTAAGAGGGAAAAGAGAGAGTTAAAAGAGTCAAAAGGTTTTTGATGGTGGGCTCTGGGCAGTAGGGGGTTACTGCTGGGGCCCCAGCTGGGTTGGCATCTTGGCTTTGGCACCTCCTAAGTGTACCTGCTTGGACAAGTTAACCTCTGTGCCTCAGTTCCTTCATCTCTAAAGTGAGGATAAAAATAGCACCTACCTCAAAGGGTTATTGTAAGGATTAAATAAATCAGCAATGGAAAAGCACCTTATAAATCGTGCCCCGCCAGAAGAGAAAGGGCACTTTGGGAAAAATGGTTTTAATTCCCTTGTTTAAATTCTTTGGGGGTGGGGGGCCAAGGTTAAGTTTCTTCCCCAAAAACCTTTGGAAAAAAATT</dnaseq>| | sequence = <dnaseq>TCTAGCGAGGTGACAGCGTAGAACCAGTACAGGCGTGCGCCACCACACCCAGCTAATTTTTGTACTTTTAGTAGAGATGGGATTTCACCCTGTTGGTCAGGCTGGTCTTGAACTCCTGACCTAGTGATCTGCCCACCTTGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCACGCCTGGCTAGGGGAAGAGTGTTTTAAGAGCTCTGAGTAGAAGGGTCTAAGTGCAGACATCTTGGCTGTTGCTGAAGAATGTGACTCTCACCGCCTCCCTCTGACACTGTACCATCTCTTTTACCCCCATCCTTAGTCCACTCACGGAGGAGGCTGCCTTGATGGATTTGACTGCAGCTTCAAACACTTTCTTGGGCAAACGAAGGTTGGTGGTGCCACTGTCCACAATGCTCTTGTCATAGTTGTACTAAGAGGGAAAAGAGAGAGTTAAAAGAGTCAAAAGGTTTTTGATGGTGGGCTCTGGGCAGTAGGGGGTTACTGCTGGGGCCCCAGCTGGGTTGGCATCTTGGCTTTGGCACCTCCTAAGTGTACCTGCTTGGACAAGTTAACCTCTGTGCCTCAGTTCCTTCATCTCTAAAGTGAGGATAAAAATAGCACCTACCTCAAAGGGTTATTGTAAGGATTAAATAAATCAGCAATGGAAAAGCACCTTATAAATCGTGCCCCGCCAGAAGAGAAAGGGCACTTTGGGAAAAATGGTTTTAATTCCCTTGTTTAAATTCTTTGGGGGTGGGGGGCCAAGGTTAAGTTTCTTCCCCAAAAACCTTTGGAAAAAAATT</dnaseq>| | ||
}} | }} | ||
− | [[Category:Intergenic]] | + | [[Category:Intergenic]][[Category:NONHSAG009728]][[Category:Transcripts]] |
Latest revision as of 05:43, 26 August 2015
Please input one-sentence summary here.
Contents
Annotated Information
Name
BACE1 antisense RNA
Characteristics
~2 kb; two splice variants were identified for human and mouse BACE1-AS. Transcribed from an intron of the beta-secretase-1 (BACE1) gene in antisense direction it also completely overlapps exon 6 of BACE-1 (Faghihi (2008)).
Function
BACE1AS expression is elevated in Alzheimers disease (Faghihi (2008)). It was shown to regulate BACE1 mRNA and protein expression in vitro and in vivo ie: over-expression, shRNA and siRNA knockdown of BACE1AS affected BACE1 expression, influencing amyloid-beta 1-42 levels (Faghihi (2008)). It was proposed that BACE1-AS and BACE1 form an RNA duplex and this increases the stability of BACE1 (Faghihi (2008)). More recently, it was suggested that BACE1AS may prevent translational repression of BACE1 mRNA by miR-485-5p via masking the binding site for the microRNA. Supporting this hypothesis, BACE1AS over-expression prevented miRNA-induced suppression (Faghihi (2010)). Expression of BACE1-AS as well as miR-485-5p are dysregulated in RNA samples from Alzheimer's disease subjects compared to control individuals (Faghihi (2010)). BACE1-AS may also be involved in sporadic inclusion-body myositis (s-IBM), whose muscle-fiber phenotype shares molecular similarities with Alzheimer-disease brain (including increased BACE1 protein). BACE1-AS and BACE1 transcripts are significantly increased in s-IBM, and experimental induction of endoplasmic reticulum (ER) stress increased both BACE1-AS and BACE1 transcripts. These results suggest that ER stress and increased BACE1-AS expression may be involved in s-IBM (Nogalska (2010)).
Expression
BACE1 and BACE1AS are co-expressed in a wide range of tissues and cell lines in mice and humans. BACE1 mRNA expression levels are higher than BACE1-AS levels across all tissues examined, except in Alzheimer's disease (AD) where, in contrast, BACE1-AS is expressed at a higher level in brain. Bace1 and Bace1-AS transcripts are also observed in various regions of the mouse brain (Faghihi (2008), Faghihi (2010)). Several cell stressors, such as high temperature, serum starvation, amyloid-beta 1-42, H2O2 and high glucose, specifically increase BACE1-AS RNA and BACE1 protein levels (Faghihi (2008)). Showed increased expression in sporadic inclusion-body myositis (s-IBM) muscle fibers (possibly caused by endoplasmic reticulum stress). Nevertheless, unlike in AD and AD-transgenic mouse brain samples in which BACE1-AS transcript was increased more than the sense BACE1 transcript , in s-IBM muscle biopsies the reversed was found (Nogalska (2010)). Mouse RNA stability was very close to median for lncRNAs, with a half-life 3.6 hr in N2A (neuroblastoma) cells (Clark (2012)).
Conservation
BACE1-AS transcript has been identified in mouse and humans, with a conserved association with BACE1 across species (Faghihi (2008)).
Misc
Mouse AK078885 and human CB960709 full-length clones are unspliced and are ~1.2kb- and 798b-long, but two spliced variants were extended by RACE by Faghini et al., 2008.
Transcriptomic Nomeclature
Please input transcriptomic nomeclature information here.
Regulation
Please input regulation information here.
Allelic Information and Variation
Please input allelic information and variation information here.
Evolution
Please input evolution information here.
You can also add sub-section(s) at will.
Labs working on this lncRNA
Please input related labs here.
References
Annotation originally sourced from lncRNAdb.
Basic Information
Transcript ID |
NONHSAT024403 |
Source |
NONCODE4.0 |
Same with |
, |
Classification |
intergenic |
Length |
798 nt |
Genomic location |
chr11+:117162062..117162865 |
Exon number |
1 |
Exons |
117162062..117162865 |
Genome context |
|
Sequence |
000001 TCTAGCGAGG TGACAGCGTA GAACCAGTAC AGGCGTGCGC CACCACACCC AGCTAATTTT TGTACTTTTA GTAGAGATGG 000080
000081 GATTTCACCC TGTTGGTCAG GCTGGTCTTG AACTCCTGAC CTAGTGATCT GCCCACCTTG GCCTCCCAAA GTGCTGGGAT 000160 000161 TACAGGCGTG AGCCACCACG CCTGGCTAGG GGAAGAGTGT TTTAAGAGCT CTGAGTAGAA GGGTCTAAGT GCAGACATCT 000240 000241 TGGCTGTTGC TGAAGAATGT GACTCTCACC GCCTCCCTCT GACACTGTAC CATCTCTTTT ACCCCCATCC TTAGTCCACT 000320 000321 CACGGAGGAG GCTGCCTTGA TGGATTTGAC TGCAGCTTCA AACACTTTCT TGGGCAAACG AAGGTTGGTG GTGCCACTGT 000400 000401 CCACAATGCT CTTGTCATAG TTGTACTAAG AGGGAAAAGA GAGAGTTAAA AGAGTCAAAA GGTTTTTGAT GGTGGGCTCT 000480 000481 GGGCAGTAGG GGGTTACTGC TGGGGCCCCA GCTGGGTTGG CATCTTGGCT TTGGCACCTC CTAAGTGTAC CTGCTTGGAC 000560 000561 AAGTTAACCT CTGTGCCTCA GTTCCTTCAT CTCTAAAGTG AGGATAAAAA TAGCACCTAC CTCAAAGGGT TATTGTAAGG 000640 000641 ATTAAATAAA TCAGCAATGG AAAAGCACCT TATAAATCGT GCCCCGCCAG AAGAGAAAGG GCACTTTGGG AAAAATGGTT 000720 000721 TTAATTCCCT TGTTTAAATT CTTTGGGGGT GGGGGGCCAA GGTTAAGTTT CTTCCCCAAA AACCTTTGGA AAAAAATT |