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.
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==Annotated Information==
 
==Annotated Information==
 
===Name===
 
===Name===
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[[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)
 
''APOA1-AS'': Apolipoprotein A-1 antisense RNA(HGNC nomenclature)
  
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===Function===
 
===Function===
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''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 also enhances the expression level of APOC3 and APOA4, which are located in close proximity on the chromatin. APOA1 expression in both human and monkey liver cells, and induced an increase in hepatic RNA and protein expression in African green monkeys.<ref name="ref1" />
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[[File: APOA1AS-2.jpg|right|thumb|300px|'''Figure 2. Characterization of the expression profiles of APOA1 and APOA1-AS.''' <ref name="ref1" />.]]
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''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" />
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===Regulation===
 
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===Expression===
 
===Expression===
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APOA1 mRNA’s expression level is highest in liver, an order of magnitude less in small intestine and two orders of magnitude less in colon . However, ''APOA1-AS'' is highly expressed in ovary, cervix, testis and thyroid. It is found that the ratio of APOA1/''APOA1-AS'' varies among the tissues examined (list the examined tissues).<ref name="ref1" />
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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" />
  
 
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| | 5'-CCTTGGATTGAAGTAATC-3'<ref name="ref1" />
 
| | 5'-CCTTGGATTGAAGTAATC-3'<ref name="ref1" />
 
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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==
 
==Labs working on this lncRNA==

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.

Annotated Information

Name

Figure 1. APO gene cluster and APOA1-AS NAT organization on human chromosome 11. [1].

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

Figure 2. Characterization of the expression profiles of APOA1 and APOA1-AS. [1].

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

  1. ↑ 1.0 1.1 1.2 1.3 1.4 1.5 1.6 1.7 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.

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
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