Difference between revisions of "Lnc-MTHFSD-2:1"
Chunlei Yu (talk | contribs) (→Function) |
Chunlei Yu (talk | contribs) (→Transcriptomic Nomenclature) |
||
| Line 2: | Line 2: | ||
==Annotated Information== | ==Annotated Information== | ||
| − | === | + | ===Name=== |
FENDRR:FOXF1 adjacent non-coding developmental regulatory RNA (HGNC nonmenclature) | FENDRR:FOXF1 adjacent non-coding developmental regulatory RNA (HGNC nonmenclature) | ||
| − | ''lincFOXF1''<ref name="ref1" /> | + | ''lincFOXF1''<ref name="ref1" /> |
| + | |||
===Function=== | ===Function=== | ||
[[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" />]] | [[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" />]] | ||
Revision as of 06:23, 25 June 2016
LncRNA FOXF1-AS1, encoded in K3-K36 domains and mapping 1.7 kb upstream of FOXF1, binds the Polycomb repressive complex PRC2.
Contents
Annotated Information
Name
FENDRR:FOXF1 adjacent non-coding developmental regulatory RNA (HGNC nonmenclature)
lincFOXF1[1]
Function
Fendrr binds to the PRC2 and TrxG/MLL complexes and to target promoters[2]
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 [2].
FOXF1-AS1 may act as a transcriptional repressor [3].
Expression
LncRNA FOXF1-AS1 has the highest expression in human lungs and partially overlaps with the FOXF1 promoter [3].
Labs working on this lncRNA
- Max Planck Institute for Molecular Genetics, Department of Developmental Genetics, Ihnestr. 63-73, 14195 Berlin, Germany [2].
- Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA [3].
References
- ↑ 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) <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.
- ↑ 2.0 2.1 2.2 Cite error: Invalid
<ref>tag; no text was provided for refs namedref2 - ↑ 3.0 3.1 3.2 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.
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 CCCTAATGC |