MmuINT0036262 @ mm10
Intron Retention
Gene
ENSMUSG00000041189 | Chrnb1
Description
cholinergic receptor, nicotinic, beta polypeptide 1 (muscle) [Source:MGI Symbol;Acc:MGI:87890]
Coordinates
chr11:69785707-69787104:-
Coord C1 exon
chr11:69786881-69787104
Coord A exon
chr11:69785880-69786880
Coord C2 exon
chr11:69785707-69785879
Length
1001 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
ATGTCACTTCTACTGTATAGATC
3' ss Score
5.15
Exon sequences
Seq C1 exon
GAGAGAAGATGGGGCTCTCCATCTTTGCCCTGCTGACGCTCACTGTGTTCTTGCTGCTGTTGGCCGACAAAGTGCCTGAGACCTCCCTGGCGGTGCCCATCATTATCAAGTACCTCATGTTTACCATGGTCCTTGTCACCTTCTCCGTTATCCTTAGTGTTGTGGTCCTCAACCTGCATCATCGCTCACCCCACACCCACCAAATGCCCTTTTGGGTCCGCCAG
Seq A exon
GTAGGAGAGCTCTCTGCATCCGATCTGTCTCAATTCCTGTTCTTACAGTCAGTCAGGTGTGGGAGAAGATGAGGCTAGCCTGGGCTACATAGTAAGATCCTGTCTGCAAATGACAGAAAGAATAAAAGAAGGGAGGAAAGGCATTCTTGCACTTGGGTTTGTGTCCAGATGCTGCTCCTGCCTTTCGCCAAGCTGTACTTGGCGTTCAGAGCTTAAGGAGAGCTGCAGTTGGCATGGTGAAGGGCCGAGCCTGCTGAGTGGTGAAGCACTGCACAGTTATTTTCCCTTCCCACGCTCATCATTTCATAGATCTACCATGTTCTTCACCCATGTGGCTCATTTGGAGGCCCAAGGAAACATTCTCAGGTTTAGATGCCATCAGGGTAGAAGACTTTGGACCCGAAAAATCAGGATGCCTCCCAGCCTGTTAAAGACTTTTTTTTTTTTTTTTTTACTTTCTGAAACAGAGATTCTCTTTGTAGTCTTAGCTGTCCTGGAACTTGCTCTGTAGACCAGAGATCCACCTGCCTTTTGTCTCCCAAGTGCTGGGATTAAAGTTGTGAGGCACCAAATCTGACCTAAAAGAGCTCTTTTTTAAAGTGTATATACATTGTGTGTGTGGTGTGTGATTATATATATATGTGTGTGTGTGTGTACACATATACATGTGTATACACACACATATATTTTTTACATGAATGAATGTTTGTTTCATGTATGTATATATGTACTACCTACGTGCCTAAGACTTACAGATGGTTGTGAGCCACCATGTGGCCCTGGAAACCAGGGTTCTCTGGAAGAGCAGTCAGTGCTCTTAACTGCTGAGCCATCTATCTGTCCAGCCCTAAAGCTGTGCAGTAGAGGTTCTGCCAGTGTAGCTCAGGAGTACTGTGAGTGCGCATGTACAGGAAGGGACATCTGGGGTGTGAATCCTTAGCTGCTTTCTTTGTGATTGAAAGCATTAAAGCCCTCTGTAATATGTCACTTCTACTGTATAG
Seq C2 exon
ATCTTCATTCACAAGCTCCCTCCATACCTGGGTCTGAAGAGGCCCAAACCCGAGAGAGACCAACTCCCTGAACCACATCACTCTCTTTCTCCAAGAAGTGGCTGGGGCAGAGGAACTGATGAATATTTCATCCGGAAGCCTCCAAGTGATTTTCTTTTCCCTAAACTTAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041189:ENSMUST00000045971:8
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=0.276
Domain overlap (PFAM):
C1:
PF0293211=Neur_chan_memb=FE(31.4=100)
A:
NA
C2:
PF0293211=Neur_chan_memb=FE(24.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGAGAAGATGGGGCTCTCCA
R:
TTCATCAGTTCCTCTGCCCCA
Band lengths:
347-1348
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