MmuINT0036255 @ mm9
Intron Retention
Gene
ENSMUSG00000041189 | Chrnb1
Description
cholinergic receptor, nicotinic, beta polypeptide 1 (muscle) [Source:MGI Symbol;Acc:MGI:87890]
Coordinates
chr11:69597538-69598699:-
Coord C1 exon
chr11:69598552-69598699
Coord A exon
chr11:69598264-69598551
Coord C2 exon
chr11:69597538-69598263
Length
288 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
TTATTTTTGTCTACCCTTAGCTG
3' ss Score
8.42
Exon sequences
Seq C1 exon
GTTTCAGCCTGAATCATCTGCCCCGGACCTGCGACGATTTATCGATGGTCCAACCCGGGCTGTAGGTCTGCCTCAGGAGCTACGAGAGGTCATTTCCTCAATCAGCTACATGGCCCGACAGCTTCAGGAACAGGAGGACCACGACGCA
Seq A exon
GTAAGTCCAAAGAGTCTGGAGCCTGTGGGCTCATGGACCTCGGCTCCACCCTTAACTTTAAGCTCCGCCTTTAGCAGGCCCTTCCGTTTCTGATTGGAAGTGTGCTTGGTTTGTCCTTCCTGCTTTCCGACTGGTTTCCTTGCTTTCATATCTAGCTGGAGCCTTACTTTTGCGCTACTTATCTTTTTCTCACATTCCAAGTAACAATACCTTGGCAGAAAACTGAAAGGGGTGGGCACCCCAAAACTCCAGACCTGGAGTTATTTATTTATTTTTGTCTACCCTTAG
Seq C2 exon
CTGAAGGAGGACTGGCAGTTTGTGGCCATGGTTGTGGACCGTCTTTTTCTGTGGACATTCATCGTTTTCACAAGCGTCGGGACCCTAGTCATTTTCCTAGATGCCACGTACCATTTGCCCCCTCCTGAACCTTTCCCTTGAGGACCCTCCGGTCATTTTTGCCAAATGCTGCAGGTACTCTCAAGCTCAATAGCGCTTGGCGCTTGTAAGAATCTTGTTTCTGGGAAGACGTTCAAGTGAGACTTGGAGGCTGAGCATGGTGCCTTGGACCCACCCGAAATGTCCTTCTACTTATTATTTAGAGTTTTGTTCTTCTGCGGTTTTGTTTTTGTTGTTTTTGAGACAGAGTCTCACTCTGTGGCCCAGGCTAGCCTGGAACTGTGGCGTCCAGGCTGGTCTCAAACTCCCAACAATGTTACTTCCTTAGCCTAGCAATTGTTGGAATCACAGACCTGGTAAACCAGCACACTTGGAGTTTGTTTCTTGAAACTACATAGAATGTCACAGCTTAGATCTCTAGTGAAATAGAATTATAACCAAGTAGTAGACTGTAAGCCTTTTGAGGACAGGAGATCTGTTGGCTACTGAATTATCCCCAGCAATGTGTACAGGTCCTAGCCCATAAGTGCTTAACATTTGTTGAAGAGAGGGAAAATAAATCTGGAAGGAAATATAAATATCGCCTACAATTGCACGTATTAAAATTAAAATGTAGAAAATGATTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041189-Chrnb1:NM_009601:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.022
Domain overlap (PFAM):
C1:
PF0293211=Neur_chan_memb=FE(20.8=100)
A:
NA
C2:
PF0293211=Neur_chan_memb=PD(13.1=66.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGGACCTGCGACGATTTATC
R:
AGAGTACCTGCAGCATTTGGC
Band lengths:
307-595
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: