Difference between revisions of "Lnc-EVX1-9:1"

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(Labs working on this lncRNA)
(Expression)
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===Expression===
 
===Expression===
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[[File:Stably expressed lncRNAs suitable for studies comparing different glioma entities..png|right|thumb|500px|'''Stably expressed lncRNAs suitable for studies comparing different glioma entities.'''<ref name="ref1" />]]
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HOXA6as showed stable expression in all investigated brain regions. <ref name="ref1" />.
 
HOXA6as showed stable expression in all investigated brain regions. <ref name="ref1" />.
  

Revision as of 12:54, 24 June 2016

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Annotated Information

Name

HOXA-AS3: "HOXA cluster antisense RNA 3 (non-protein coding)"

HOXA6as

Characteristics

Multiple spliced transcripts between HoxA6 and HOXA7 on the antisense strand, share some splice junctions but have different 5' and 3' ends (Sessa (2007), Sasaki (2007)). Some HOX6as transcripts overlap to one or both HOX protein coding genes (Sessa (2007), Sasaki (2007)).

Function

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Expression

File:Stably expressed lncRNAs suitable for studies comparing different glioma entities..png
Stably expressed lncRNAs suitable for studies comparing different glioma entities.[1]

HOXA6as showed stable expression in all investigated brain regions. [1].

Conservation

HOXA6as transcripts contain sequences conserved in mammals and even sequences ultra conserved in vertebrates. Similar mouse transcripts are not known, however, transcripts which run antisense to both HOXA5 and HOXA6, that share an splice junction with HOXA6as and transcribe through the vertebrate conserved element, are present in both species. Misc Example accessions: AK091933, AK092154.

Misc

Example accessions: AK091933, AK092154.

Transcriptomic Nomeclature

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Regulation

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Allelic Information and Variation

Please input allelic information and variation information here.

Evolution

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Labs working on this lncRNA

  • Center for Neuropathology and Prion Research (ZNP), Ludwig-Maximilians-University. [1]

References

  1. 1.0 1.1 1.2 Kraus TF, Greiner A, Guibourt V, Lisec K, Kretzschmar HA. Identification of Stably Expressed lncRNAs as Valid Endogenous Controls for Profiling of Human Glioma[J]. Journal of Cancer. 2015,6(2):111-9.

Basic Information

Transcript ID

lnc-EVX1-9:1

Source

LNCipedia2.1

Same with

,

Classification

intergenic

Length

2354 nt

Genomic location

chr7+:27186781..27193904

Exon number

,

Exons

,

Genome context

Sequence
000001 TTCTCTTTTA AGAAGCCAAA GAAACTTTGC TGGTTCTTTC ATCCTTTCTT TCTCTCTATT CCTCTTTCTA CTCTGTTTCC 000080
000081 TCCTTCTTTC TTTCTTTTCC TGCCTCCTTT CCCCTCTCCC TCCACTGTCT TGGGATATGT CTTACCCGCG CAGGAGTTCA 000160
000161 TCCGCTGCAT CCAAGGGTAA ACCGGGCTCG TGTACTTCCG GTCGGCGCCT TCGTCATGGA GTGCTTTGCC CTGCCCGCTG 000240
000241 CTGCTGTCGG AATTCCACCC ACGCACCTAT TCCCCCTCCC AGCGCTTCAG ACACCTCTCT CATCGAAAAA CCGGGCGAAG 000320
000321 GGAAGCCGGC AACGAGCGGA GAACTCTGGC TGAATTAACG GTGGCTCCCA GAAGCTCCTG CCCCTCTGAC AGCTGTCGCT 000400
000401 TGGGCAGCCC GAGAGAAGAA TTGTCCTCTT TCCTGGTGCC AGAGGACGCA GGAAATTAGC CAGGTTGCGA GTTGCAAAGC 000480
000481 TGCTGCCGCG GCGCCGGGAA CGGAGCGCGC CCAATCTCCA GCGGGAGCCG CCAGGCCTGG CCTGGCCTGG CCGGGGCTTC 000560
000561 CCTTCGCTCG CCATCTCCGG ACAAAGCACA GCCGAGCCCG GCTGGAAGGC AGAGCTCCGA AGCAGGCAGG ACGGAGTGGA 000640
000641 GCAAAAGAAT GCGGCTCTAT TCTCGCAAGG GAAATTATAA AAAAGTTCAT GTTCACGGTT CTCATCCACA TGACCGACAG 000720
000721 CGGCCAATGG AAGGGCCGAA CAACTCATAA AGTTGTATTG CAAAGTTGTA AATTTTCATA AACAACAACG GATTTATGAC 000800
000801 CCTTTCCCCA TCACTGAGAG GAGGCAGCTC TTACACCGGC GCCATCTTAC CACCGAGGCC GCCCCGACTT GGGGCCTCAG 000880
000881 GTTTTACAGA CCCTTTTGGG CCAGGTTTTA CTAAAAGAGC CATAAGAAGC GGGCCCAGCC CAGGCAGGAG ACTGGAGACG 000960
000961 AGGTCTTGCA GGCGGAACTC AGGATGCTCT GAGCTGCCCG CACAACCCCT GGACCTTCAC CCCTCGCCCC TTCCCCGCAT 001040
001041 CCAGCTGCCC CAGCCCCTGC CCAGGCTGCG TAGCCTAGCG GGGGTCTGCG GTCCTAGCCC CTCCCCGCGC CACCTACTGC 001120
001121 AGTGCCGGAC CCTGGGGCCC CCTCGCCTGG TCTGCAGGCG GGGTGGGGAC CTTAAATCCC ATTTCCTAGC CTGGGGCTGG 001200
001201 GTTCAGGGCG CATGCGAATC CGGAATCAGC TCTGGGTAAT GCCCCTTTCC AAGCCCACTG CTCAGCCTTA GAGGAAAGTG 001280
001281 TGGATTTGAA ATTTCCTCAT GGAATTGATG GAGGTTTTTA GGTAGATTCA TAGAATATAA CGTATCTACC AAAGATTCCG 001360
001361 TTTTCAAGGG ATCTAGAAGA TGTTAGTGCA CACGCAAAAA CCAGACAAAC GTCTCTACAC GGATAAAGGC ACATATACAA 001440
001441 TTATGCACAC AGGGAAGGGC ATACACTCTA TTGTGGGCAC AGAATGACAT GCAATTATGG ACACACAAAA ACACATGCAC 001520
001521 CCAATTATGG ACACCAAAAT ATATACAATT GTGGAATTAG GTAAAAACAC ACACACAGAA ATACATACAC AGAAAAATAA 001600
001601 GCACATACTC ATACAAATAC ACACATAAAA ATACATTAAA AAGATACATG ACACCAATAC ATGGGTACCC AACACTTGGA 001680
001681 CCATCACAAG GACAGCCACC CCACTTTTGC TTCCCCACTG CCCCCTGCCC TCCAGCCATA CTCACCTCCC CTTTCCCAGT 001760
001761 CCCCTCTGGA TAAGGCAGTC CACATTTTTC TTTGTCACCA CGCATCTTTA TTTTCGGTTA CATAAAACAC AGCTGGGCTG 001840
001841 GGAAGTGTGC CTTCCCTGAA CCCCAGGATG GAGCTGAGCA GGGTACAGGA CAACACAGGA GATGAAGGGC ATTGCGGAGG 001920
001921 GCATTGGACC TCCCCACCCA CTACAGTTAA CTCAAGACAA CATACCATGC TACAAAGTCA CCCCATTAAC ACATCCTTTC 002000
002001 CAAGTCAAGA CACTGCCTTA CAAATGAACT CCAAGACTAT AGAAATGATA AAAAAAAATC TTGTTCAAAT ATACAGTATC 002080
002081 TGCTATTATA GGAAACATCA GGGCGTACAT ATTTAACACA GCTGAACAGT AAGATACAGG AGCCAGAGGA AAGGACAGCG 002160
002161 AAGCTGGAAG CATCTCCACA GTCCTGCTAA GCAGAAGCTA ACCCACAGAT CTGCAGCCAG CTCAGGAACA TTCCCCTCCA 002240
002241 GAAGTGGGGG TTGATGGGCC TGAGCTGTGG GTGCCAAGCC AGAGAAGGAG GGATTGATTC TAGGGTGCAA GCACTTAGGA 002320
002321 TGCTTTTTGG AATAAATATA TTATTTTTCG ATTT
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