Lnc-BHLHE23-3:1

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Annotated Information

Transcriptomic Nomeclature

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Function

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Regulation

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Expression

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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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Basic Information

Transcript ID	lnc-BHLHE23-3:1
Source	LNCipedia2.1
Same with	,
Classification	intergenic
Length	896 nt
Genomic location	chr20-:61726844..61733671
Exon number	,
Exons	,
Genome context
Sequence	000001 GTGACCCTGC GGTTAAAACC CGCGCGCTGC AGCATCGCGG AAAACGGGAT TCGCCTCATT TGAAACTTGA GGAAAATCTC 000080 000081 TAAACACTTT CATTTTGATA GAAACCATTT CCGCCGCTGA CGTGCGTCTA CGCCCATCAT TTCAGCTGAC ACGTTGCTGT 000160 000161 AACGTCTCCT CCGTTTCATG CTCTTTCGAA CCCTGTCAGC TGCGGGAAGG AACTTCTAAA CTAAAAGCTG GCAAGACTCA 000240 000241 GCAGAAAAAA AATATCGAAA GCTGCTTCTG CTGCCCCAGC TTCACTCAGG CCCTGGCTGC TCCTTCACTG GTCTACACTG 000320 000321 CTGCCTCCTG GAACCACCCA CTCTGCAACC AGGTCTGATG CCCGGTGTGG ACATTCAGGG ATGAGGTCCC CTGGGGCTAA 000400 000401 ATGAATGAAC AGATTCTGAA AAGCAGAAGC TACGTCCGGG GGTCTCTGGG CCACAAATCA CTTTCTGACC TGCAGCCGTG 000480 000481 AGGCGTGAGG CTCACTCGGA AGCTCCCGGA ACCTGGAGAC TGCCCTCACT CAACACTTGA ACAAGCAAGG GGCCAGGTTC 000560 000561 AATGAAACAC CTGCCCGCCC GGCACACCAG GCTCAAAAGC AAGCAAGCAA GCAAACAAAC AAACAAAATC AAATCAGGCC 000640 000641 TTCACAACTC CCCAAATCAT GTGTGAGTTT CTACAGAGCA GAAGCCAAAA ATATATGTTA TCTAACTAGG TCCTATTTAC 000720 000721 ATATATTTTT ATGGCTGCTC TAAAAAATTA TCACAAACAT AGCGGCTTCA CCCCGTTTCC CCTGTTGTGA TTATTACACA 000800 000801 TTGGATGCCT GTATCAAAAT ATCTCATGGA CCCCATAAAT AGCAACACCC TGTATGTACT CATGACAATT TTTTAAAAAA 000880 000881 GAACACTTAC ACTTTC

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Annotation (From lncRNAdb)

[lnc-BHLHE23-3:1]

Section	Description
ID	HAR1B
Characteristics	~900bp in humans. Contains a 'human accelerated region' (HAR). Overlaps with an antisense noncoding RNA, HAR1A (Pollard (2006)). Two splice isoforms, one with 2 exons, one with 3 exons (Pollard (2006)). Conserved HAR1 sequence (common to both HAR1A and HAR1B) forms a secondary structure which is highly conserved (Pollard (2006)) but has undergone changes from a hairpin structure in chimps to a cloverleaf structure in humans (Beniaminov (2008)).
Expression	Expression was found in adult brain, ovary and testis in human. Expression level was much lower than HAR1A (Pollard (2006)). Repressed transcriptionally by REST, which causes repression of HAR1B in striatum of Huntington's disease patients (Johnson (2010)). . The mouse locus is expressed during embryonic development (peak at E15) and in adults it is specifically expressed in the brain. Unlike in human, "HAR1B" was expressed at similar levels to "HAR1A" in mouse (Pollard (2006)).
Conservation	Contains a 'human accelerated region', which is a sequence highly conserved in amniotes (negative selection) but which has evolved rapidly in the human lineage (positive selection) since the divergence of humans and chimpanzees from the last common ancestor (18 bases out of 118 are different between human and chimpanzee but only 2 differences between chimpanzee and chicken) (Pollard (2006)). Rest of HAR1B sequence has little conservation outside of chimp and macaque (Pollard (2006)).

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