ENST00000609176.1

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Annotated Information

Transcriptomic Nomeclature

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Name

AIRN: Antisense of IGF2R non-protein coding RNA

AIR

IGF2RAS

Characteristics

108 kb (unspliced). Transcribed from an antisense promoter located in intron 2 of the Igf2r (insulin-like growth-factor type-2 receptor) gene ((Lyle 2000), (Wutz 1997)).

Also a number of spliced isoforms from 500bp to ~1.4kb ((Seidl 2006)).

Imprinted, expressed only from paternal allele ((Wutz 1997), [http://www.ncbi.nlm.nih.gov/pubmed/10802648 (Lyle 2000)).

Function

Regulates genomic imprinting of a cluster of autosomal genes (Igf2r, Slc22a2 and Slc22a3) in cis, on mouse chromosome 17 ((Sleutels 2002)).

Truncation of Air disrupts imprinting not only of Igf2r but also the nearby non-overlapping genes Slc22a2 and Slc22a3, leading to mice with a lower birth weight ((Sleutels 2002)).

Air RNA forms a "cloud" over the imprinted DNA locus, binding to chromatin. Recruits G9a histone methyltransferase to epigenetically silence Slc22a3 ((Nagano 2008)). Igf2r is not silenced by this mechanism.

Nb: Slc22a3 and Slc22a2 are only imprinted at a specific time point in placental development. Outside of this time point the Air "cloud"/ Air chromatin binding and repressive histone modification are not found on these gene loci ((Nagano 2008)).

Regulation

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Expression

Expressed during embryonic development, in the placenta ((Wutz 1997), (Lyle 2000)), adult brain, lung and heart ((Seidl 2006)).

Expressed in glial cells of the developing brain but not in neurons, explains lack of Igf2r imprinting in these neurons. ((Yamasaki 2005))

Unspliced Air is unstable, localised to the nucleus. Spliced isoforms, found in nucleus and cytoplasm, are more stable ((Seidl 2006)).

Conservation

All characterisation been carried out in mouse. Recently Air has been identified in human ((Yotova 2008)) but full length transcripts have yet to be characterised.

Allelic Information and Variation

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Misc

Nb: Genebank and NCBI Gene sequences for Air are all for the spliced mouse isoforms. See http://www.ncbi.nlm.nih.gov/gene/104103. UCSC browser link below is for transcript variant 3 which covers a similar length to the unspliced transcript. (Brosens 2012)

Evolution

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Labs working on this lncRNA

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References

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Basic Information

Transcript ID	ENST00000609176.1
Source	Gencode19
Same with	NONHSAT115887
Classification	intronic(AS)
Length	1489 nt
Genomic location	chr6-:160424323..160428696
Exon number	3
Exons	160424323..160424419,160425983..160426190,160427513..160428696
Genome context
Sequence	000001 GAAAGCACAC ACCATGCTGG AAAGGAGAGA GAAGGAAAAA CCCACTCCTA GCCACACAAT GGTGGATCTT AATATCCAAT 000080 000081 GAAAAGAAAA AATTCTAATC TAGGTCACAC ACAATAACCC AATATAAAAT GAACAAGACA TGATCAAGCA AATCAAAGAA 000160 000161 AAATGTACAT CAATAAATAT GTTAAGACAT GTTCAATGTT ACTGGTGATC AAGGAATTTC AAATCAAGAC CAAAATGGTA 000240 000241 TACCATTTAC AACCATCCCT CTGGCAAAAA TTAAATACCA AGTGTCAGCC ATGAGGTGGC TCAGAGCTCT CCTGTATTGC 000320 000321 TAGTGAAATG TTAACTGGTT CAACAACTAT GTAAGTCAGC AGGACATTAT GTCCTAAAAT TGAACATTCG TGTGCCCTAT 000400 000401 GACCTAGTTA CTCCACTCAG GTCTATATAA AAGAGAAAAC CATGCACATA TGGAACATGC ACAGCAGAAA ATGTGAAAGA 000480 000481 ATATCTCATG CTCTTCAGAA GAGCAAAAAC CTGGAAATGA CCAAAGGCCC ATCAACAGAA GAGTGGATAA ATTAACTTCA 000560 000561 GCAGATCCAC ACAAAATATC ACAGCAGTCA GAAGGAATAA ACCACAGTGA AAAACAACAA TACGGTTGAT TTTTAGTAAT 000640 000641 ATTACTGTTA TCACTTAAGT CCCAAAAAGT TACACATAGG AAGATAACTT AGTTGCAAAC ACACAGATTT TTTTTTTTTG 000720 000721 GAAATTAGAT ACAGTAAAAA AAAAAAAAAA TTAATACAAG ATGGGAGCTA ATGATTACTC CTAGCGAAAA GTGAAAGAGG 000800 000801 AAAGAGTAAA ACAGATAGTG GTTACTGCCA AGATCCTAGA TTTTTGTTGG AAACAGTGCT CGCTACATTA TACAAAACAA 000880 000881 CTAATTTTTT AAAAGGAAAA AGGTTAGTCT ATGGATTAAC ACATGGCTCA CTGTACGTGC CATGAGCTCG GGATGATAGC 000960 000961 TGATCCAATC CCATATACAC CTGAAGTCTT GGGGCAGGGG CGGACCACGA GTCAGCGCGC CCCCACAGCA CCAGGCTGAT 001040 001041 GGCCCCGTGG TTCTTCTGCC TGCAAGCAAA AGTCAGCCAC GATCATCCTT CTCCATCTGC AACACCCAGG GTCTTTTCTA 001120 001121 AAACTTTTGC CCAGTCGGCT CAGCCAAAAG GACACAGAAG CCCTGCAGAG GCTCTGAAAC CAAGCTGCCA TGGCTCCCAG 001200 001201 TTCGACATCA TGTCACCGGA GCCTGCACAG ATGAACCAAG CTTGCAACAC GGGAGGAACC TAAGCGCTGG ACTGAGGAGC 001280 001281 GGGACTGAAA TAAGAAGCGC ACACCACATG GCAAGATCCA GGATCCAATC AGATAGAGCC CTGGTGTCAT CTAATTGCAA 001360 001361 GATCCAATCA GAACACACCT CATTACCTTA TGGTATTGCC AGACTATCAG GAGAGACCAT AAATCAGATA AAAACATGAG 001440 001441 TTGTATCCAA AACTCAACCA GGTATCATCT TAAATATCCA ACAGAATTC

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