MmuINT0036261 @ mm9
Intron Retention
Gene
ENSMUSG00000041189 | Chrnb1
Description
cholinergic receptor, nicotinic, beta polypeptide 1 (muscle) [Source:MGI Symbol;Acc:MGI:87890]
Coordinates
chr11:69600383-69606410:-
Coord C1 exon
chr11:69606201-69606410
Coord A exon
chr11:69600607-69606200
Coord C2 exon
chr11:69600383-69600606
Length
5594 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
CTGCCTTCACTGCCTCTCAGGAG
3' ss Score
7.14
Exon sequences
Seq C1 exon
AGAATGGCCAATGGGAGATTATCCACAAACCTTCTAGGTTAATCCAACTTCCAGGGGATCAGAGAGGTGGGAAGGAAGGGCATCATGAGGAAGTTATCTTCTATCTCATTATTCGGCGGAAGCCTCTCTTCTACCTGGTCAACGTCATTGCCCCATGCATCCTCATCACGCTCCTGGCCATCTTTGTCTTCTACCTCCCACCAGATGCAG
Seq A exon
GTAAGGGCAGGGGCTCCAGGCTCTCTGTGGCGTTATCCCAGCATCTTCCTTCTCACCTTTTAGTCCAGGTTTGCTTTGGTGTTCTAAGATTTGTACACGAGGTGGATGGTGATGGCCAATGCCTTTAATCCCAGCATTTGAAGGCAGAGGCAGGCAGGTCTTTGAGTTCCAGGCCAGCCTGGTCTACAGAGCGAGTTCCAGGCCAGCCAAGGCTACACAAAGAAACTTTGACTTGAAAAAAAAAGATTTGTGCATACTCACACAGACACACCACACACACACACACACACACACACACACACACACACAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGACTGGAGTTCCAGGCATTCCTGAGCCTCCTGAGGCAGATAGTACTGGGATCTGAACTTCAGACCTCTGATAGAGCACTAGCCTAGTTTTCTTTTTTGTAGGTGCGATAAAAGACTGGCCAAAACCAACTTATGGGAGGAAAGGGTTTTAATTGGCTTACAGGTTACAGTTCACCATCAAGGCTGGAGCTCAAAGTAAGAACTGAAAACAGATGGTGAAAGGACTCTGCTTGCTGGCTTGCTTCCTCTGGCTTGCTCAGCTACTTTCTTTATACAGTCCTGAACCACTTGCCCAGGAATGGCACTGTCCCATGGTGGATTGGGCTCTTCAATATCACCTAGCAATTAAGAGACTGTCCCCTACTCGCCCACAGGCTAGTCTGATGAAGTCGTTCCTTTTGACGTCTCCTTTTTCTCGGTTTGTGAAATGAACTGAAGTTCATCTAAATAAGCACTAAGTGTTCTTAACTACTGAGCAATCTCTCCAGCCCCCAGGTTAGGGTTTTGGTTTTTTTGTTTGTTTTTGTTTTTTGTTTTTTTTGCCAACTCAAACCATCGCAGATTGGCTCTCAACAGGTCCAGGTTCTCCCCATGCACAATTAAACCCATCTCCTGGCTCTGCATCCCCTCTGCTTCTGGCTTCTCTTCACTCGGTAACATTTTCACTCTTCCCTTTAGAGTTCCAGCCTCCCATTCACAGAGCTCCCACGTATATGACAAACCAAATTCCAGGCTAAGCCAACTTTTTGTGTTTCCCATTCCTAGCAAACCACCTTCCTCCTACCTTCCAGACACCAACTGGTGCCTTCTCTGGCTGTCTCCGTAGGAAATGACAGTTGACTTTTCTCTGTAAGGAAGTACAATATAGCAACAGGGTATAACCCTGAACACGTTCCATCATGACTGTGTGTCTGAGTTTCCTGATCTGGAAATGGGACAGTCACTGTCTCTACTGCATAAAATGATTCTGAAGATTGACCAGGTTAATAAAACTATACCTGGTACCTAGCTGGATCTATGTAAATGTGTTTGCTATGTTTGAACAATTGCTGGAAGGTAATACAATTGAATTCTATGTGTAAATTCTAATCTTTACAATAACCTTTCAGGTAAATGCCAAATTGTCATTTCCTTTTATAGAGAAGGGTACAGAGGCTGAGGGAAAGAAAGTCATTTACCCTGGCAGCACATTCAGGTCAGTACTTCTGCACTTGGGAGGCTGATGCAGGAGAATTGCTAACAGTTTGAGGCAAATGAGTATGAGTTTACCTGAAGTTTCATAAGCAAGATCCTGTCTCAAAACATTCCAAAAAACAAAGCAAGCAAATATGAAAACAAATAATCAGACCCCTGCATTTTCCTCATTTATGACATCCAGCCCTCTCTCCAGAAAGGAAGAGGGACGCTGTTCAAGAACGTATTCTCAGGTCCTGTAAGATGGCTCAGTAGGTAAGATGCTTGTGACCAAGCTTGAGGGCCTGAGTCTAATATGAAACCCTTAAGTTGTTCTTGGACACCTCTCGGTGTTCTATAGAAGGCTTTGTGTACACAAACACACACACACACACACACACACACACACACACACAAACACACACACATACAGACACACACAGTGTTAAAAAGAAAAAAGAACCTACTTACAAATACAACCACTTCCTTCTAGAACAGGGCAATCTTGGAACCTAGTATTACAGGCCTAAAATAGAGTGAACTGTATAGCTTATTTCTTTCAGTAGCTTTCATGAAGTTTGTAAGGTCTCTTGTATGACACAGGAAGAATCAGCCACTTTTGTATACTGTTTTATTTTTAGATTCTTCAAATTGCTATATTGTTCTTGAAAAAGCTACAGGGATTGGTCTATTCACTTATGCAACTCTGTCTGTGGGAATCCTATGATATGCTGGGCACTGAAAATGTATCAGGGAATAAAAACAACATAACTGGATTGAGACTATTGCTCCATGGTAGAGCACTAGAGGAGGTCTGTAGAGCTAGTCTACTGCACACCAAGTCCTGGATTCCATCCCTAGCAATGGGGTCTGCAGGGCGTGGCAGGGATGTCGGTTAGCTGGCTTAGTGTTTCCCTTGTATGCATGCATGAAGCCCCAAATTCAATCCCCAGAACCCATCTATAAACAGACAGCAAACAAGTAAATAAAATCCCTGACTTCCTTCTAGTGGGGAAGCCTGTCAATAGAATGATGTTCTCCATCATAGGTTACAAAAGAGCAAGTTTTGTTGTTTGTTTGTTGTTTTATTTATTTATTTTTCAAGGCAGGGTTTCTCTGTGCAGTCCTGGCTGCCCTGGAACTCACTCTGTAGACCAGGCTGGCCTTGACCTCAGAAATCCACCTGCCTCTGTGTCCTGAGTGCTGGGATTAAAGGTGAATGCCACCACGTCCAGCTTCTGAACGAGTTTTAAAGAGGAAAATAAAACAGGAAGCAGTTTGGAAAGACTAAATGAGGGTGGACTCCTGTTGTACTAGCACTCAAAGACAGGACTACACAGGGAGGATGCAGGCTACAGAGTGAGATCCGATCTCAAAAACAGGCTGGGGTGGGAGGGTAGCTGTAGTGTTTGCCTCTCATGCACGAAGCCTTTGACCCTTATGGCAGAATAAACCAGACACAGTAGCAAACCCTGTAATTCTAGAGCCAGGGATGGGAGGGAGGACAGGGGGATCAGAAAGTCAAGGTCACGCTCTGAGCACAGTGAGCTCAAGGCCAGACTGAGTATGTGACATCTGGTCTCAAAAATCAAACCAAGCTAGAGAGATGGCTCAGCTGGTTAAGGGACTTGCTGCCAAGTCCGATAACCTCAGTCTGATCCCTGGAATCTCCATGCCACGGGGAGAGAATGCACTCTTGCAGGCTGTGTGTGCCATGGCACTTGTGCTACCCCAAGTCCCAAAATAAGTTAAAATGCGATCAAAAACATCTAATGAGAACAGGGCCAGGGACTCTGTGGCTTTTTTGGTTACAGGGTCTGAGTATCCCAAGTAACCAAAACTCACACGTAGCTAAGATAACCTTTAACTTCTGATCCTCCTGCCTCTCTCTCAGGGGAGCTAGAATCACAGGCATGCATTACCACACCAGTTTCTGGGGTGCTGGGGGTTGTAGCCAGGGCTCCCTGTATGTTGGGGAAGCACCGTGCCAACCGAACTCCATCCTCAGCCTTAGAGGCTGCAATTTCAAAACAGCATCCCTGGAGCTGGAAAGATGTCTCAGCTGTTAAGTGCACTGACTGCTCTTCTGAAGGACCTGAGTTCAAATCCAAACAACCACATGGTGGCTCACAACCATCCTTAAAGAGGTCGGACACCCTCTTCTGTTGTGTCTGAAGACACCTATAGTGTACTTACTTAGAATAATAAAATAAATCAATATTTAAAAAAAAAACCACAGCATCCCTGAGTTTGGTCCCTAGCCCCAAAGAATAAAAAGGGATGAGTAAATAAATAAAAATTGGGGATGGTGGTATACATCTTTAATGTGGGAGGCAAATCTCAGTGAATTTGAAGCCAGCCTGGACTACTGTACTATATAGTACTATAGTATAGTACATTCCAGTGAGAGTCAGGGCTACCTGAGACCATTCAAAAACCAAAATGGGAAAGGTACTTGCTGCTAAGCCAGATGACCTGAGTTTGATCCCCACATGAGGAAAGAGAAATGACTCTTGAAAACTGTCCTCTGGGCATGGCTCTTGCTCTGCCATATGTGTACATGTGCATATGTGTGCACAAACATATACACAAAATAAAAATAGAAGAATTTAATATGAGTAAAACCTGGTGTTAGCAAATGCCTCAACAAAAAGCAAGTATTTGGCTTTAAGTGGGTAGGGAATAGCCCTCAAGTTTCTGGTGGAAGAACATGCCAGGTAGAAGAGATTGCAAGCACAACGGCCCTCCAATGAGAGGCTATCATCTACATTGGCCAAATAGAGAGGTTCAAAATGATAGACAAAGGTAGGCATGGGGGTGCATAATATAATCCAATACTCAGGCAAGTGAGGCAGGAGGATCATCTTAAATTTGAGGCCAGTCTGAAATACATAGTCAGTCCTTCCAAAGGTCCTGAGTTCAAATCCCAGCAACCACATGGTGGCTCACAACCATCCGTAATGAGATCTGATGCCTTCTTCTAGCACATCTAAAAGACAGCTACAGTGTACGTATGTATAATAATAAATATATCTTTTTAAAATTTTTTTAAAAAAGAGGAAAACCAAACATAATTTTAAAAAGTAAAGGAGGAAGGAAAGGGGATCAAGTTAGGAAGCCAATGACAGAGGCGTACAGACCATAGAAATAGCAGCATTTCTCTTTGTGTGTCTGTGTGTCTGTGTGTGTCTGTATGTCTGTGTGTTTGTCTCATTTCCAGACAGAGTTTCATGTAGCCCAGGTTAGCCTTGAACTCCATATGTAGCTGAGGCTAGCTAGCATTGAATTCATGATCTTCCTGCCTCTATCACCAAAGTGTTAGGATGGGTGGGACGCCATGCTAGACCTAGTTTACTTTATACTAGAAAGATAATAACATAATGGAAGCTACATCCCAACTTCCTTTCAAAAAAAAAAATTCTGGTACTAAGAATTGGATCCAGGGTCTTAAGCAAGCAAGGCTAGCATTGCATCAGTTCATTTGGATTCTCAGCCTCATCCAGCCCTGTTTGCCTAAGCAGTCCAGGTTGACCTTGAATTTATTCTGTAGCCCAGAAGCAGGCTTTGAACTTGCAATCCTCCTGTCTCAGCCTTGAGAGCAGTTGGGATACAGAACTGTGCCAGGCCCAACTGTTCTGTGATGTCCGTTAGATAGTCAGCAACAACAAAATGAGTCGGCATCTGAATGTGAGCCTGGTGTTCAGAGGAAGTCTGAGAAATGGCTGGGTGAGAGAGATTTGCATACAAATGGCTTTTCCAAAAGCCTACCCCTAGGTTGGAGACATGACCTTTGATTATGCCATAGAGATGTCCTTCTGGTAAAGACGAATCCTTCTTAGTGGTGTCAGTGCGCGCCTCTAATCCCAGCATTTGGGTTGGGAGGCAGAGGCAGGATTTCTGAGTTTGAGGCCAGACTGGTCTACACAGCAAATCCCAGAACAGCCAAGGCTACACAGAAAGTCCTTGTCTCAATAAAATAAATAAATAAATATATATATATATATATATATATATATATATATATATATATATATATAAAACAAAAAACTAATCCTCTGCCTTCACTGCCTCTCAG
Seq C2 exon
GAGAGAAGATGGGGCTCTCCATCTTTGCCCTGCTGACGCTCACTGTGTTCTTGCTGCTGTTGGCCGACAAAGTGCCTGAGACCTCCCTGGCGGTGCCCATCATTATCAAGTACCTCATGTTTACCATGGTCCTTGTCACCTTCTCCGTTATCCTTAGTGTTGTGGTCCTCAACCTGCATCATCGCTCACCCCACACCCACCAAATGCCCTTTTGGGTCCGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041189-Chrnb1:NM_009601:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.014 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=PD(18.7=57.7),PF0293211=Neur_chan_memb=PU(9.3=31.0)
A:
NA
C2:
PF0293211=Neur_chan_memb=FE(31.4=100)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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: