Difference between revisions of "ENST00000509909.1"
Chunlei Yu (talk | contribs) (→Function) |
Chunlei Yu (talk | contribs) (→Annotated Information) |
||
| (9 intermediate revisions by the same user not shown) | |||
| Line 3: | Line 3: | ||
==Annotated Information== | ==Annotated Information== | ||
===Transcriptomic Nomeclature=== | ===Transcriptomic Nomeclature=== | ||
| − | CARMEN: cardiac mesoderm enhancer-associated non-coding RNA <ref name="ref1" /> | + | ''CARMEN'': cardiac mesoderm enhancer-associated non-coding RNA <ref name="ref1" /> |
===Characteristics=== | ===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" />. | + | ''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=== | ||
| − | [[File: CARMEN | + | [[File: Knockdown of " CARMEN " impacts upon cardiac specification and differentiation.jpg|right|thumb|400px|'''Knockdown of ''CARMEN'' impacts upon cardiac specification and differentiation''' <ref name="ref1" />.]] |
| − | 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'' 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" />. | + | ''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 was activated during pathological remodeling in the mouse and human hearts, and was necessary for maintaining cardiac identity in differentiated cardiomyocytes <ref name="ref1" />. | + | |
| + | ''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" | {| class='wikitable' style="text-align:center" | ||
| Line 48: | Line 50: | ||
|} | |} | ||
| − | === | + | ===Disease=== |
| − | CARMEN controls cardiac specification, differentiation and homeostasis <ref name="ref1" /> | + | ''CARMEN'' controls cardiac specification, differentiation and homeostasis <ref name="ref1" /> |
===Conservation=== | ===Conservation=== | ||
| − | CARMEN is highly conserved in mouse <ref name="ref1" />. | + | ''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. | ||
Latest revision as of 15:48, 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] |
Disease
CARMEN controls cardiac specification, differentiation and homeostasis [1]
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 1.13 1.14 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 |
