Difference between revisions of "ENST00000444200.1"
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''APOA1-AS'', an antisense transcript of APOA1, functions as a negative transcpritional regulator of APOA1 by modulating distinct histone methylation patterns. | ''APOA1-AS'', an antisense transcript of APOA1, functions as a negative transcpritional regulator of APOA1 by modulating distinct histone methylation patterns. | ||
| + | ==Annotated Information== | ||
| + | ===Name=== | ||
| + | [[File: APOA1AS-1.jpg|right|thumb|600px|'''Figure 1. APO gene cluster and APOA1-AS NAT organization on human chromosome 11.''' <ref name="ref1" />.]] | ||
| + | ''APOA1-AS'': Apolipoprotein A-1 antisense RNA(HGNC nomenclature) | ||
| + | ===Characteristics=== | ||
| + | ''APOA1-AS'' is transcribed from the positive strand of chromosome 11 and has two exons, positioned ~20kb apart. It shares a 123 nucleotide-long region overlapping with the fourth exon of APOA1 mRNA.(Figure 1) | ||
| + | ===Function=== | ||
| + | [[File: APOA1AS-2.jpg|right|thumb|300px|'''Figure 2. Characterization of the expression profiles of APOA1 and APOA1-AS.''' <ref name="ref1" />.]] | ||
| + | ''APOA1-AS'' functions in cis to modulate histone methylation patterns of APOA1, through the recruitment of LSD1 and PRC2. Targeting ''APOA1-AS'' using short antisense oligonucleotides will enhance APOA1's expressopn level. ''APOA1-AS'' also regulates the transcription of APOC3 and APOA4, which are located in close proximity on the chromatin. <ref name="ref1" /> | ||
| + | |||
| + | ===Expression=== | ||
| + | APOA1 and ''APOA1-AS'' are expressed in all tissues examined, but there their expression levels are quite different. APOA1 mRNA’s expression level is highest in liver, small intestine and colon, while ''APOA1-AS'' is highly expressed in ovary, cervix, testis and thyroid. The ratio of APOA1/''APOA1-AS'' varies among the tissues examined.(Figure 2) <ref name="ref1" /> | ||
| + | |||
| + | {| class='wikitable' style="text-align:center" | ||
| + | |- | ||
| + | ! | SiRNA name | ||
| + | ! | Sequence | ||
| + | |- | ||
| + | | rowspan="1"|APOA1-AS1 | ||
| + | | | 5'-CCAAATGGCAAACCTTCTT-3'<ref name="ref1" /> | ||
| + | |- | ||
| + | | rowspan="1"|APOA1-AS2 | ||
| + | | | 5'-GGCTACTTATTGCTGGAAA-3'<ref name="ref1" /> | ||
| + | |- | ||
| + | | rowspan="1"|APOA1-AS3 | ||
| + | | | 5'-CCTTGGATTGAAGTAATC-3'<ref name="ref1" /> | ||
| + | |} | ||
| + | |||
| + | ==Labs working on this lncRNA== | ||
| + | Center for Therapeutic Innovation & Department of Psychiatry and Behavioral Sciences, University of Miami Miller School of Medicine <ref name="ref1" />. | ||
| + | ==References== | ||
| + | <references> | ||
| + | <ref name="ref1"> Halley P, Kadakkuzha BM, Faghihi MA, Magistri M, Zeier Z, Khorkova O, et al. Regulation of the apolipoprotein gene cluster by a long noncoding RNA[J]. Cell reports. 2014,6(1):222-30. | ||
| + | </ref>(1) | ||
| + | </references> | ||
{{basic| | {{basic| | ||
Latest revision as of 10:55, 29 June 2017
APOA1-AS, an antisense transcript of APOA1, functions as a negative transcpritional regulator of APOA1 by modulating distinct histone methylation patterns.
Contents
Annotated Information
Name
APOA1-AS: Apolipoprotein A-1 antisense RNA(HGNC nomenclature)
Characteristics
APOA1-AS is transcribed from the positive strand of chromosome 11 and has two exons, positioned ~20kb apart. It shares a 123 nucleotide-long region overlapping with the fourth exon of APOA1 mRNA.(Figure 1)
Function
APOA1-AS functions in cis to modulate histone methylation patterns of APOA1, through the recruitment of LSD1 and PRC2. Targeting APOA1-AS using short antisense oligonucleotides will enhance APOA1's expressopn level. APOA1-AS also regulates the transcription of APOC3 and APOA4, which are located in close proximity on the chromatin. [1]
Expression
APOA1 and APOA1-AS are expressed in all tissues examined, but there their expression levels are quite different. APOA1 mRNA’s expression level is highest in liver, small intestine and colon, while APOA1-AS is highly expressed in ovary, cervix, testis and thyroid. The ratio of APOA1/APOA1-AS varies among the tissues examined.(Figure 2) [1]
| SiRNA name | Sequence |
|---|---|
| APOA1-AS1 | 5'-CCAAATGGCAAACCTTCTT-3'[1] |
| APOA1-AS2 | 5'-GGCTACTTATTGCTGGAAA-3'[1] |
| APOA1-AS3 | 5'-CCTTGGATTGAAGTAATC-3'[1] |
Labs working on this lncRNA
Center for Therapeutic Innovation & Department of Psychiatry and Behavioral Sciences, University of Miami Miller School of Medicine [1].
References
Basic Information
| Transcript ID |
ENST00000444200.1 |
| Source |
Gencode19 |
| Same with |
lnc-APOC3-1:1,NONHSAT024360 |
| Classification |
antisense |
| Length |
563 nt |
| Genomic location |
chr11+:116706833..116726445 |
| Exon number |
2 |
| Exons |
116706833..116706955,116726006..116726445 |
| Genome context |
|
| Sequence |
000001 CAGCTTCTCT TGCAGCTCGT GCAGCTTCTG GCGCGCGCCC TCTTGGAGCT CTGCGCGCAG CGGCTCCACC TTCTGGCGGT 000080
000081 AGAGCTCCAT CTCCTCCTGC CACTTCTTCT GGAAGTCGTC CAGATCCAAA TGGCAAACCT TCTTCATCCA CCAGGACCCA 000160 000161 ACCCACAGGC TACTTATTGC TGGAAACCTA CGTTGTTCCT TGGATTGAAG TAATCTCTCC CTCCTCTGGT GCGCCCACAG 000240 000241 CACTTGCACC AACAGTGGGT ACTCAACAGA CTAGCGTGCC TGCCGAAGAA GGGGTCCTCT GACAATCAGG GGACAATGGG 000320 000321 GAATTATGCT CTCCAGACTT TCTACACACA CAAGTCACAC AGGAAGGAAG GTAAAGAGAA ACTAGAGAAA ATAATTTTTG 000400 000401 AAGAAAAACA TTTCAGGAAG TATTGAAAGT ACACGGTAAC TCAGCCTGGG GCAGGGGTGG AGGGCAGCAG CACTGTTTGC 000480 000481 TGCAGCTATG CTCCTTCCTC AGTGCCCTGC ACACCCGGGA CTTGCTCGGT GAGCATCTCT CGTGTCAGTG ACAGCTAGTG 000560 000561 TGA |
