Difference between revisions of "Lnc-MTHFSD-2:1"

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LncRNA FOXF1-AS1, encoded in K3-K36 domains and mapping 1.7 kb upstream of FOXF1, binds the Polycomb repressive complex PRC2.
 
  
 
==Annotated Information==
 
==Annotated Information==
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===Transcriptomic Nomenclature===
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===Name===
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FENDRR:FOXF1 adjacent non-coding developmental regulatory RNA (HGNC nonmenclature)
 
  
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''lincFOXF1''<ref name="ref1" />
 
 
===Function===
 
===Function===
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[[File:Fendrr binds to the PRC2 and TrxG/MLL complexes and to target promoters.jpg|right|thumb|400px|'''Fendrr binds to the PRC2 and TrxG/MLL complexes and to target promoters'''<ref name="ref2" />]]
 
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Mouse experiments suggest that Fendrr is essential for proper lateral mesoderm differentiation and can itself be considered to be a  regulatory factor as a repressive role. Fendrr, by interacting with the PRC2 and TrxG/MLL complexes at a specific set of promoters, is required for fine-tuning of the GRN controlling the development of organs and tissues derived from the LPM <ref name="ref2" />.
 
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FOXF1-AS1 may act as a transcriptional repressor <ref name="ref3" />.
 
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===Expression===
 
===Expression===
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LncRNA FOXF1-AS1 has the highest expression in human lungs and partially overlaps with the FOXF1 promoter <ref name="ref3" />.
 
  
 
==Labs working on this lncRNA==
 
==Labs working on this lncRNA==
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* Max Planck Institute for Molecular Genetics, Department of Developmental Genetics, Ihnestr. 63-73, 14195 Berlin, Germany <ref name="ref2" />.
 
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* Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA <ref name="ref3" />.
 
  
 
==References==
 
==References==
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<references>
 
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<ref name="ref1">Grote P, Wittler L, Hendrix D, Koch F, Wahrisch S, Beisaw A, et al. The tissue-specific lncRNA Fendrr is an essential regulator of heart and body wall development in the mouse[J]. Developmental cell. 2013,24(2):206-14.</ref.>(1)
 
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<ref name="ref2">Grote P, Wittler L, Hendrix D, Koch F, Wahrisch S, Beisaw A, et al. The tissue-specific lncRNA Fendrr is an essential regulator of heart and body wall development in the mouse[J]. Developmental cell. 2013,24(2):206-14.</ref>(2)
 
  
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<ref name="ref3">Szafranski P, Dharmadhikari AV, Brosens E, Gurha P, Kolodziejska KE, Zhishuo O, et al. Small noncoding differentially methylated copy-number variants, including lncRNA genes, cause a lethal lung developmental disorder[J]. Genome research. 2013,23(1):23-33.</ref>(3)
 
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</references>
 
  
 
{{basic|
 
{{basic|

Latest revision as of 02:28, 7 September 2016

Annotated Information

Name

Function

Expression

Labs working on this lncRNA

References

Basic Information

Transcript ID

lnc-MTHFSD-2:1

Source

LNCipedia2.1

Same with

FENDRR ,FOXF1-AS1

Classification

intergenic

Length

3099 nt

Genomic location

chr16-:86508131..86542466

Exon number

4

Exons

86508131..86510805,86511492..86511657,86512311..86512362,86542261..86542466

Genome context

Sequence
000001 AGCAGACAGC GCGGGCTGGG AGCGCCGGCA AGGGCGGCCC TCGCGCACCT GGCTGCCAGC CCGCAGGGGG CTCGCACGCA 000080
000081 GACCTGCCCT TGCCACCTCA GCGCTCGGGT GCGGGCTGGG GGCGGTGGAG CCACGAAAGG TGGTGCCGAG AGCGGAGCGC 000160
000161 AGGACAGCGC AGGAGCCCCG GCGCATCGCG GCGCGCACAG ACCCAGGATT ACTTCATGCA CATAAAAGAA AACGCAACTA 000240
000241 CAGTGGACCC TGAACAACCT ATGGCCTGCA GCCACTGAAG AATGCTTGCA TAAGGAGCTC TTCTCTGCAC ATACCCCGAC 000320
000321 ACAGTGATGG TATCTTGCAG CTGCTGCTTC TGTCCAAGGC ACTGCAGCCT ACTCGTCAAA AGCCCGAAGC CCAGCTCTGC 000400
000401 CAGCAGTGCA CTGTGTGCTC TTAGGAAACA GAGAAGCAAA GAAGTTAGCA AGCTTGTTTT GGCAGAAGAA AAAACACAAA 000480
000481 ATACCCAACC ACAGATCCTC AAAAATATTG CTAAGCACTA ATTTTGCTAA CATGTTAGAC AGCCTTCGGA TCTAGGCAAT 000560
000561 CTTGTTCCTC AGCTGGAAAG AGTTCCTGCC AGCCATGTGA TTCCAAATCC ACCCTGGACA TATGGGGATA ATGAGAAAAT 000640
000641 CAGCTCCGGC CTTCCCTGGC CTTCCAGCCA AGTGAATGGG GGCATCCCCT GGTGCTTCAG CCCGGGGCCC ACCCAGAGGA 000720
000721 TGCTAGCTGG CCTGCAGAGG CCTCAACCAT GCCCTCCTGG ACTCAGGTAA GACTGAGGTT TCCATGCCCT CAAAACAATT 000800
000801 GTTCAGACAA AAACTCACTG CCCAGGTCAA AGTCACAGCA CCAGAAAGCC AACCTGAGGA TGAAGACAAA GCTCTTTGTT 000880
000881 GGCACAGTCC CCTGATCATT CGAGGTCAGC ATCTCCATCA AAATGGACCC AATGCTGAGG CAAGAAGGAG AACATCACTG 000960
000961 TTAAGAAGGT AATGAGTCAC AAATGCTATT TCGATGGTTT TCTTTGAAAG AAATACACAG AACCAAACCA ATTTTAATTA 001040
001041 AAGATCTTGT CTTTGTAATC AGGCAGCCAC AAATGAAGGC AAAACTGCTT TCATGTGGCA TAATATACAC AGAGCTGAAC 001120
001121 TAGTTTTCCC ATAAAAGGGC AGGTTCTTTT CTTCAAATAA GAAAAGAGTT TGTTCCTAAC AATATGGGGG ATGCAACAGA 001200
001201 AAGCTGTCTT TTGCAAAGTA TAAAATTGCA GATCCTCCCG TGGAAGCCAT TTCTTGATGC TAAACCAATG CGAACGTTTG 001280
001281 CCAAACGCAC ATGCGAGCCG GGATTATCCT ACCCTTTGAG ATTAGACATG TGATCCTGAT TTTTAAGTGA AAAACGCAGC 001360
001361 CAGAGGCCAA ATAAACATAC CTACAAGTAC ATCGAAAGCT CAAATGGTTG AGAAATGATT GTAACACACC CCGGTGTGTA 001440
001441 TTTCTGAGGA AGAATCAACA TGCACATGGA AATTGATGTT TTGATTTTTA ATTTTAAAAC GACGACAGAA CTGAAATACC 001520
001521 TCCCCTAACT AGGTCCACTG AAACCAGTGA GGAGATAATC ATTTTCAGTT AAATATGCAT GTAATTTAAT AATCCACAGA 001600
001601 TGGAAAATGC ATTTGAGGTG GACTGAACAC AGCCAGGAGT TTTTGCTTAT CGACAGCACT GAATCCTGCC TTGACTAGAG 001680
001681 AGACTCGTCA TGTGATCAAC TGTGGCCAGA GGGCATCCTG CAGACAGCTC CTGTCACACC ACACTGACCA GACTCTTATG 001760
001761 AGTATTTAAG CATCTTCAGG GAAGCGATTG ACTGTCTTAT AATGGTCTTA CAAGTACGGA ACTTTATTAC CTGCTAATAA 001840
001841 TCAGAGCACA TGATGGCACA ATAGAATATA CGAGTGAAGT TCTAAATGCA AGGTTGTTCT TATTCTGTGA GTGGCAAAAC 001920
001921 TCATGCAGTG AGCAGATAAA GCTGGCAGGA GGCATTGGCG CCCTAATGCT GGGCACTAAC CACCTGCCCG GACTGCGAAT 002000
002001 ATCTGTTGGG TCCTTTCTAT ATCTGGTCTA TTCTCGTGTT TGATTATATC CTGGTGGCAA GAATAGCAAA ATCAACTCTC 002080
002081 CTTCCTATCC CATGTGGAGA GGCATGATTT GAGTCAGAGA GCATTATCCT CTCTGCGTTA TCCAACCCCA TGTCCCATGA 002160
002161 TGCACTTTGT AGACAAGCAA GTGTCCCTGG TGGAGAATCC ACAGCCACAC ATCCTCATTG GTTGCAAGGA TCAGTGTCCA 002240
002241 ATATCTACTG CCATGATCAT TCTCAGTTTT ACATCCACAG AGCTTCATAG AATTCTAACA CCACAGGTCC AAGTAGAGGT 002320
002321 TTTGGCCTCA GAGTGGGCTA GATTCCACCT CTGACAGCAG CTGTGGGACT GTTTTTCCAT CTGTAAAATG GAGACAAGAG 002400
002401 TATCACCTAC CTCATGGTGT TGGTGGGATC GTTAAACAGA ATTCCGATCA TGAAACCCTT AGCCTGCTCC CTGCATAGGC 002480
002481 TGCATGCGCT CAGTGAGCTA TGGCTCTGTT TCATGCTGAC TTTACCATCA TGTAAGCAGT TTTAAAAATG CTAGAAGCTT 002560
002561 TAGTCATAGA ATTACCATAT GATACAGCCT ACTGCAGAGT CCAGAGGCTG AGGCAGGAGA GTTACTTGAA CCTGGGAGGC 002640
002641 GGAGGTTGCA GTGAGCCAAG ATCGCGCCAC TGCACTCCAG CCTGGGCAAC AGAGTGAGAT TCTGTCTCAA CACAAAAAAG 002720
002721 AAGACATGTG TCCCCATCAC AGTATCATAC AGAGTGCTTC CACTGCCCTA AAATACCCTG TGCTCTTCCT ATTCATCCCT 002800
002801 CTCTTCAACC CCAGCAACCA CTGATCCTTT TACCATCTCC ATGGTTTTGC CTTTCCCAGA ATGTCATATT GTTGGAATCA 002880
002881 TACGCTATGT AGCCTTTGCA AATGGGCTTC TTTCACCGAG CAATGTGCAT TGAAGGTGCC TCTATGACTT TTCAAGGGTT 002960
002961 GATAGCTCAT TCCTTTTTAT TGCTAAATAA TATTCCATTG TCTGAATGTA CCACATTTTG TTTATCCATT CACCTACTAA 003040
003041 AGGACATCTT GGTTGCTTCC AAGTTTGGGC AATTATAAAT AAAACTGCTA TAAACATTG
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