MmuINT0036263 @ mm9
Intron Retention
Gene
ENSMUSG00000041189 | Chrnb1
Description
cholinergic receptor, nicotinic, beta polypeptide 1 (muscle) [Source:MGI Symbol;Acc:MGI:87890]
Coordinates
chr11:69598552-69599381:-
Coord C1 exon
chr11:69599209-69599381
Coord A exon
chr11:69598700-69599208
Coord C2 exon
chr11:69598552-69598699
Length
509 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TCCCCACCCTACACACACAGGTT
3' ss Score
6.12
Exon sequences
Seq C1 exon
ATCTTCATTCACAAGCTCCCTCCATACCTGGGTCTGAAGAGGCCCAAACCCGAGAGAGACCAACTCCCTGAACCACATCACTCTCTTTCTCCAAGAAGTGGCTGGGGCAGAGGAACTGATGAATATTTCATCCGGAAGCCTCCAAGTGATTTTCTTTTCCCTAAACTTAACAG
Seq A exon
GTAAGACCTACACTAGTCGCTGGGTGTGGTGGTGCACGCCTTTAATCCCAGCACTCGGGAGGCAGAGGCAGGCAGATTTCTGAGTTCGAGGCCAGCCTGGTCTACAAAGTGAGTTCCAGGACAGCCAGGGCTATACAGAGAAACTCTGTCTCGAAAAACAAAACAAACAAAAAAACAAAACAAAACAAAAAACAACAACAAAAAAAGACCTACACTAATCAATCACTTGGGCAAGGGAGAGCTACAGCTCCCAGAAGACAGTGGAAGGTAATGTGGCCTAGCATCATGGGAGTTGTAGGAACCTTGTCTGTGCTTGCATTGTAAAAAGGTGGCATTTAAAAGTTTAAAGAGCCAGAAACTTGCAAAAGTCTGGAGAGGTCGGAAGGTCTCTCCCAGGTACGGAAGGTTGTTGGAGGAGGCAGCTGGAGCAGGGTTGACAGGTCAACGGGAACTTCACATTCTCTTTGAACCCAGGGTGTGGTCAAACAGTCCCCACCCTACACACACAG
Seq C2 exon
GTTTCAGCCTGAATCATCTGCCCCGGACCTGCGACGATTTATCGATGGTCCAACCCGGGCTGTAGGTCTGCCTCAGGAGCTACGAGAGGTCATTTCCTCAATCAGCTACATGGCCCGACAGCTTCAGGAACAGGAGGACCACGACGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041189-Chrnb1:NM_009601:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.276 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0293211=Neur_chan_memb=FE(24.2=100)
A:
NA
C2:
PF0293211=Neur_chan_memb=FE(20.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCTTCATTCACAAGCTCCCTCC
R:
GTCGTGGTCCTCCTGTTCCT
Band lengths:
318-827
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: