Lnc-RNF214-1:2

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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

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Regulation

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Allelic Information and Variation

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Evolution

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Basic Information

Transcript ID

lnc-RNF214-1:2

Source

LNCipedia2.1

Same with

,

Classification

intergenic

Length

807 nt

Genomic location

chr11+:117162061..117162857

Exon number

1

Exons

117162061..117162857

Genome context

Sequence
000001 GGCTCACCGC AACCTCCACC GTCCTGAGTT AAAGTGATTC TCCTGTCTCA GCCCCCTGAG TAGCTAGGAT TACAGGCGTG 000080
000081 CGCCACCACA CCCAGCTAAT TTTTGTACTT TTAGTAGAGA TGGGATTTCA CCCTGTTGGT CAGGCTGGTC TTGAACTCCT 000160
000161 GACCTAGTGA TCTGCCCACC TTGGCCTCCC AAAGTGCTGG GATTACAGGC GTGAGCCACC ACGCCTGGCT AGGGGAAGAG 000240
000241 TGCTTTAAGA GCTCTGAGTA GAAGGGTCTA AGTGCAGACA TCTTGGCTGT TGCTGAAGAA TGTGACTCTC ACCGCCTCCC 000320
000321 TCTGACACTG TACCATCTCT TTTACCCCCA TCCTTAGTCC ACTCACGGAG GAGGCTGCCT TGATGGATTT GACTACAGCT 000400
000401 TCAAACACTT TCTTGGGCAA ACGAAGGTTG GTGGTGCCAC TGTCCACAAT GCTCTTGTCA TAGTTGTACT AAGAGGGAAA 000480
000481 AGAGAGAGTT AAAAGAGTCA AAAGGTTTTT GATGCTGGGC TCTGGGCAGT AGGGGGTTAC TGCTGGGGCC CCAGCTGGGT 000560
000561 TGGCATCTTG GCTTTGGCAC CTCCTAAGTG TACCTGCTTG GACAAGTTAA CCTCTGTGCC TCAGTTCCTT CATCTCTAAA 000640
000641 GTGAGGATAA AAATAGCACC TACCTCAAAG GGTTATTGTA AGGATTAAAT AAATCAGCAA TGTAAAGCAC TTAGAATCGT 000720
000721 GCCCAGCAGA GAGAAGGCAC TTGGTAAATG TTTATTCTTG TTAATCTTGG GTGGGCAGGT AGTCTCCAAA CTTGAAAAAA 000800
000801 AAAAAAA
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