hattrill
commented
9 months ago NoteL for CCAT1, the promoter looping version is the long version CCAT1-L, not the short version. I think that URS000075ADFF_9606 is the short version and that the long version is not in RNAcentral.
- [x] These papers and reviews make reference to CCAT1-L:
PMID: 30254457 PMID: 28838211 PMID: 24777251 PMID: 24662484
-> Checked several DB and submitted seq links: CCAT1-L and CARLo-5 are the same thing, which maps to CCAT1 so URS000075ADFF_9606 is the correct ID to annotate to.
Check and add exp annotation for examples:
[x] chromatin-protein adaptor activity (GO:0140463) XIST URS000075D95B_9606 Epigenetic silencing via interaction with X chromosome to recruit chromatin modifiers/organizers to mediate dosage-compensation. PMID:31048766 random inactivation of X chromosome (GO:0060816)
[x] DNA-DNA tethering activity (GO:0106260) FIRRE URS00002F3F76_9606 Bridging regions of chromosomes to bring them together. PMID:24463464 chromatin organization (GO:0006325)
[x] promoter-enhancer loop anchoring activity (GO:0140585) CCAT1 URS000075ADFF_9606 Promoter–enhancer interactions via chromatin looping PMID:31048766 chromatin looping (GO:0140588)
[x] protein sequestering activity (GO:0140311) MHRT URS00007E4CE3_9606 Binding to and preventing chromatin remodelers from accessing target loci. PMID:31048766 chromatin remodeling (GO:0006338)
[x] molecular condensate scaffold activity (GO:0140693) NEAT1 URS0000204428_9606 Organization role in phase separation in the formation of paraspeckles PMID:31048766 chromatin organization (GO:0006325)
[x] miRNA inhibitor activity via base-pairing (GO:0140869) MIAT URS00007E4AF8_9606
lncRNA with multiple mir-7 binding sites, often leading to degradation of lncRNA and target miRNA. PMID:34454184 lncRNA-mediated post-transcriptional gene silencing (GO:0000512)