MmuINT0036298 @ mm10
Intron Retention
Gene
ENSMUSG00000014609 | Chrne
Description
cholinergic receptor, nicotinic, epsilon polypeptide [Source:MGI Symbol;Acc:MGI:87894]
Coordinates
chr11:70617147-70617705:-
Coord C1 exon
chr11:70617605-70617705
Coord A exon
chr11:70617348-70617604
Coord C2 exon
chr11:70617147-70617347
Length
257 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAAG
5' ss Score
4.01
3' ss Seq
CTGTGCCCTATGTCCTGCAGAGA
3' ss Score
9.09
Exon sequences
Seq C1 exon
CTCCCAGACCTACAATGCTGAGGAGGTGGAGTTCATCTTTGCCGTGGATGACGACGGCAATACCATCAACAAGATTGACATTGACACGGCAGCTTTTACCG
Seq A exon
GTGAAGGGATATACCCCCTTTCCAAAAATTCTTCTCCCAGATAAGGTTCAAGGGGGGACGTTCAGGGTAGGGCTTGGCCTGAACCACACAACCGGAAGCTGAGCTTCTTGAAGTCAGTCTAGATGTGTTGTTTCCACACCCCCACCAGAAATGCCCCTCTCTACCATTCTGCCCCCGTGCTAACAGCCCAGGTTTCAAGCAGCCCTCTTGGCCTGGAGTTGCAGGTGTGCGGGCTGACTGTGCCCTATGTCCTGCAG
Seq C2 exon
AGAATGGAGAATGGGCCATAGACTACTGCCCAGGCATGATTCGCCGCTATGAGGGAGGTTCCACAGAAGGTCCTGGAGAAACTGACGTCATCTATACGCTCATCATCCGCCGGAAGCCGCTTTTTTACGTCATTAACATCATTGTGCCTTGCGTGCTCATTTCTGGCTTGGTGCTGCTCGCTTACTTCCTGCCTGCGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000014609:ENSMUST00000102556:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=FE(15.7=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=PD(18.0=57.4),PF0293211=Neur_chan_memb=PU(9.2=30.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCAGACCTACAATGCTGAGG
R:
GGCAGGAAGTAAGCGAGCAG
Band lengths:
292-549
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types