Lnc-RASA1-3:25

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Annotated Information

Name

AK082072

Characteristics

Intergenic, 2 exon transcript in mouse, with HeK4me3 chromtain mark at 5' (Chodroff (2010)). Human ortholog is linc-POLR3G-8 (Cabili (2011)). Human ortholog has a number of splice isoforms with 3 or more exons.

Function

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Expression

Expressed in specific regions of embryonic and post-natal mouse brain (see Chodroff for details) including the rostal migratory stream at P3 with a °∞potential association with inhibitory GABAergic neurons°± (Chodroff (2010)). Expressed in opossum and chicken embryonic brains showing spatio-temporal conservation of expression (Chodroff (2010)).

Conservation

Highly conserved for a lincRNA 36.7% mouse transcript overlaps phastCons elements (Chodroff (2010)). Conserved in mammals and back to frog, although mouse exon 2 is not conserved in all orthologs (Chodroff (2010)). Opossum ortholog [GenBank:GU951678]. Frog and chicken ([GenBank: CX847574.1 and CR35248.1] respectively (Chodroff (2010)).

Misc

Mouse transcript contains Evofold-predicted RNA secondary structure (Chodroff (2010)). LncRNA transcripts in human from bidirectional promoter with TMEM161B (over 50kb upstream from linc-POLR3G-8 start site) can also share exons 2 and/or 3. See BC047059.

Transcriptomic Nomeclature

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Regulation

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Allelic Information and Variation

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Evolution

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Labs working on this lncRNA

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References

Annotation originally sourced from lncRNAdb.

Basic Information

Transcript ID	lnc-RASA1-3:25
Source	LNCipedia2.1
Same with	NONHSAT102652
Classification	intergenic
Length	848 nt
Genomic location	chr5+:87688109..87732764
Exon number	3
Exons	87688109..87688159,87705890..87706011,87732090..87732764
Genome context
Sequence	000001 GGGGGCTTTA AGGAAGCAAA TGGACTTTCA GAACAGAGAT TGTCAATAAA GATCCAATGT GATAATTTAT GTGAAATCTT 000080 000081 TCTGCAAACT ATACAGTATG ATAAAAATAT AAGGTAGTTT CACTGGAAAC AACAGAAGAC TAGAAGCTGA TGTGACGTGG 000160 000161 CAATATCAAC CAGGAATACC CATCTCGAGT TCTGGATATG TGCTCTGAGA AGGTGCCCAT GTCACCGACC ACACTGGAGG 000240 000241 CCAATGCAGA TACTGGGGGA AGGTTCCATG GTAGCTAAGT GTGGACAAGC TAATCACTGA AGTTCCCTGA TGCAGAGTTG 000320 000321 ATAATCTCTC TAGAGTTGGA TGAAAGACTG TGCTGCCTTG AAGCTCTGAG AGATGCCATG CCAATTCAAG GCAGGGTCTT 000400 000401 TATTGTTGAA ACTCTTGCGT AATGACATCT TTATTCAGGT GAAAATACAG GATGAATTTC AACTATATGA TATTGTTTAT 000480 000481 GTTCCTCAGA CATGTTATTT GTCTTTACAA AGATTGGTTT CAATAAACTG TGTGACTGAT ATTAAATAAA CATGGAATTT 000560 000561 TACACATTCA TAATATTTGG TTTCTTGTGA TTTTGATGAA CTATACTTTC AAGCATTGTC AGTTCATCCT CATTTACAAG 000640 000641 GAAACATTTG CTGTAGCAGA GTGATGTAGT GACTTGCTTT ACTTAAGATA AGTCAACTTT TCTATTCAAT GTTTAATGTG 000720 000721 AAACTGACTT AAAAATTTTC TTTTAGGCCA CATTTACATT TCTGTTTGTA TAACATGCAT TATACTATTT TAACTTAATA 000800 000801 CTATGGCTAT ATAAACCAAA GACATCCTAA TTCTGTTTTT AATTTATT

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