Difference between revisions of "ENST00000509909.1"
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| − | + | CARMEN, a human super enhancer-associated long noncoding RNA, is a crucial regulator of cardiac specification, differentiation and homeostasis. | |
==Annotated Information== | ==Annotated Information== | ||
===Transcriptomic Nomeclature=== | ===Transcriptomic Nomeclature=== | ||
| − | + | CARMEN: cardiac mesoderm enhancer-associated non-coding RNA <ref name="ref1" /> | |
| + | |||
| + | ===Characteristics=== | ||
| + | CARMEN, derived from a human super enhancer (SE) and proximal to an important developmental miRNA locus, encoding the MIR-143 and -145, represents a novel SE-associated lncRNA critical for cell fate determination and differentiation <ref name="ref1" />. | ||
===Function=== | ===Function=== | ||
| − | + | CARMEN knockdown inhibits cardiac specification and differentiation in cardiac precursor cells independently of MIR-143 and -145 expression, two microRNAs located proximal to the enhancer sequences<ref name="ref1" /> | |
| − | = | + | CARMEN exhibits cis-acting function and associates with EZH2 and SUZ12, suggesting that CARMEN may have trans-repressive roles during cardiac differentiation <ref name="ref1" />. |
| − | |||
===Expression=== | ===Expression=== | ||
| − | + | CARMEN expression increasing in the stressed heart reflects upregulation in a subset of cardiac cells other than cardiomyocytes, in particular CPCs <ref name="ref1" />. | |
| + | |||
| + | CARMEN expression was activated during pathological remodeling in the mouse and human hearts, and was necessary for maintaining cardiac identity in differentiated cardiomyocytes <ref name="ref1" />. | ||
| + | |||
| + | {| class='wikitable' style="text-align:center" | ||
| + | |- | ||
| + | ! | RT-qPCR | ||
| + | ! | Forward primer | ||
| + | ! | Reverse primer | ||
| + | |- | ||
| + | | rowspan="1"|CARMEN1 | ||
| + | | | 5'-GATGGAAAAGATGGCAGAGG-3' | ||
| + | | | 5'-TAGGTGTTGGCTGAGTGCAG-3'<ref name="ref1" /> | ||
| + | |- | ||
| + | | rowspan="1"|CARMEN2 | ||
| + | | | 5'-CCAACCACTCCCCAAACA-3' | ||
| + | | | 5'-TTACAGCCGTTGCTCTCCTT-3'<ref name="ref1" /> | ||
| + | |- | ||
| + | | rowspan="1"|CARMEN3 | ||
| + | | | 5'-GAGTAGGAGGGAGCCTTTGG-3' | ||
| + | | | 5'-TTTGCCTCCATCTCCTCTGT-3'<ref name="ref1" /> | ||
| + | |- | ||
| + | | rowspan="1"|Carmen | ||
| + | | | 5'-AATAGACTGGGCCTCCACCT-3' | ||
| + | | | 5'-GTTCCTCTCTGGGGCTCTTC-3'<ref name="ref1" /> | ||
| + | |- | ||
| + | | rowspan="1"|CARMEN LncRNA cloning | ||
| + | | | 5'-TACCGAGCTCGGATCCtcagtgccagctgcttaaaa-3' | ||
| + | | | 5'-CTGGACTAGTGGATCCaggcacagtgttagagtttgct-3'<ref name="ref1" /> | ||
| + | |- | ||
| + | |} | ||
| − | === | + | ===Diseaese=== |
| − | + | CARMEN controls cardiac specification, differentiation and homeostasis | |
| − | === | + | ===Conservation=== |
| − | + | CARMEN is highly conserved in mouse <ref name="ref1" />. | |
You can also add sub-section(s) at will. | You can also add sub-section(s) at will. | ||
==Labs working on this lncRNA== | ==Labs working on this lncRNA== | ||
| − | + | * Experimental Cardiology Unit, Department of Medicine, University of Lausanne Medical School, Lausanne, Switzerland <ref name="ref1" />. | |
==References== | ==References== | ||
| − | + | <references> | |
| + | <ref name="ref1"> Ounzain S, Micheletti R, Arnan C, Plaisance I, Cecchi D, Schroen B, et al. CARMEN, a human super enhancer-associated long noncoding RNA controlling cardiac specification, differentiation and homeostasis[J]. Journal of molecular and cellular cardiology. 2015,89(Pt A):98-112.</ref>(1) | ||
| + | </references> | ||
{{basic| | {{basic| | ||
tID = ENST00000509909.1| | tID = ENST00000509909.1| | ||
source = Gencode19| | source = Gencode19| | ||
| − | same = lnc-PCYOX1L-2:11,NONHSAT104500| | + | same = lnc-PCYOX1L-2:11,NONHSAT104500|CARMEN |
classification = intergenic| | classification = intergenic| | ||
length = 550 nt| | length = 550 nt| | ||
Revision as of 14:45, 22 June 2016
CARMEN, a human super enhancer-associated long noncoding RNA, is a crucial regulator of cardiac specification, differentiation and homeostasis.
Contents
Annotated Information
Transcriptomic Nomeclature
CARMEN: cardiac mesoderm enhancer-associated non-coding RNA [1]
Characteristics
CARMEN, derived from a human super enhancer (SE) and proximal to an important developmental miRNA locus, encoding the MIR-143 and -145, represents a novel SE-associated lncRNA critical for cell fate determination and differentiation [1].
Function
CARMEN knockdown inhibits cardiac specification and differentiation in cardiac precursor cells independently of MIR-143 and -145 expression, two microRNAs located proximal to the enhancer sequences[1]
CARMEN exhibits cis-acting function and associates with EZH2 and SUZ12, suggesting that CARMEN may have trans-repressive roles during cardiac differentiation [1].
Expression
CARMEN expression increasing in the stressed heart reflects upregulation in a subset of cardiac cells other than cardiomyocytes, in particular CPCs [1].
CARMEN expression was activated during pathological remodeling in the mouse and human hearts, and was necessary for maintaining cardiac identity in differentiated cardiomyocytes [1].
| RT-qPCR | Forward primer | Reverse primer |
|---|---|---|
| CARMEN1 | 5'-GATGGAAAAGATGGCAGAGG-3' | 5'-TAGGTGTTGGCTGAGTGCAG-3'[1] |
| CARMEN2 | 5'-CCAACCACTCCCCAAACA-3' | 5'-TTACAGCCGTTGCTCTCCTT-3'[1] |
| CARMEN3 | 5'-GAGTAGGAGGGAGCCTTTGG-3' | 5'-TTTGCCTCCATCTCCTCTGT-3'[1] |
| Carmen | 5'-AATAGACTGGGCCTCCACCT-3' | 5'-GTTCCTCTCTGGGGCTCTTC-3'[1] |
| CARMEN LncRNA cloning | 5'-TACCGAGCTCGGATCCtcagtgccagctgcttaaaa-3' | 5'-CTGGACTAGTGGATCCaggcacagtgttagagtttgct-3'[1] |
Diseaese
CARMEN controls cardiac specification, differentiation and homeostasis
Conservation
CARMEN is highly conserved in mouse [1].
You can also add sub-section(s) at will.
Labs working on this lncRNA
- Experimental Cardiology Unit, Department of Medicine, University of Lausanne Medical School, Lausanne, Switzerland [1].
References
- ↑ 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 1.11 1.12 Ounzain S, Micheletti R, Arnan C, Plaisance I, Cecchi D, Schroen B, et al. CARMEN, a human super enhancer-associated long noncoding RNA controlling cardiac specification, differentiation and homeostasis[J]. Journal of molecular and cellular cardiology. 2015,89(Pt A):98-112.
Basic Information
| Transcript ID |
ENST00000509909.1 |
| Source |
Gencode19 |
| Same with |
lnc-PCYOX1L-2:11,NONHSAT104500 |
| Classification |
{{{classification}}} |
| Length |
550 nt |
| Genomic location |
chr5+:148786527..148803902 |
| Exon number |
4 |
| Exons |
148786527..148786641,148800044..148800107,148801044..148801164,148803653..148803902 |
| Genome context |
|
| Sequence |
000001 CCAGAGGCTG GGTCTAATTA GTTGAGAAGC AGTGACACCC CCAACCACTC CCCAAACAGG CTGGCTCCCG TCTCCAGGCC 000080
000081 CCAAGGAGCC ACACCTGGAC CAGACCCCAG GAAAGACATG TGGTGGAAAC CCTACGGCCC TGGAGCCCAA GGAGAGCAAC 000160 000161 GGCTGTAACA AGTGCACAGG CAAGGGCGCT AGCTGGTGGG AGCCACCCCG CCATGCTGAT GTCAGAGAAG CAAGAACTCT 000240 000241 GGAGAAGCAG CCTCCTGGGA CCAGAGGAGG GCCAGCAGCA GGCAGCCCGG AGACAGAACT CTCACCCACG CCTCTCCAAG 000320 000321 CCTCCCAACA GAAGACAGAG GTCCCCCACA GCCAGAGACA TTTCCTGAAG ACATGGGGAA CACAGAGGCA GAAACAGCCC 000400 000401 ATCCACCCAG GAGCTGTCCC CCACACTGCC GGGAGCCGGC ACCCAGAGCC GCCAGGTAAA ACTGAGGCCA CCTGGTTCAA 000480 000481 CATCACCTTT CACAGAAGGG GAAGCAGCCA CAGAAAGAAG GGCCTCGTTA AGAAGTGGAA CCTGGGACCC |
