MmuINT0036224 @ mm9
Intron Retention
Gene
ENSMUSG00000032303 | Chrna3
Description
cholinergic receptor, nicotinic, alpha polypeptide 3 [Source:MGI Symbol;Acc:MGI:87887]
Coordinates
chr9:54862944-54870095:-
Coord C1 exon
chr9:54869986-54870095
Coord A exon
chr9:54863956-54869985
Coord C2 exon
chr9:54862944-54863955
Length
6030 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGG
5' ss Score
7.66
3' ss Seq
GCCCCACTGTGTCTTCCCAGCGC
3' ss Score
8.87
Exon sequences
Seq C1 exon
ATCTGGAATGACTACAAGCTGAAATGGAAACCCTCTGACTACCAAGGGGTGGAGTTCATGCGAGTCCCTGCAGAGAAGATCTGGAAACCAGACATCGTGCTTTACAACAA
Seq A exon
GTAAGGAGCTGGCTGTCCCATACTCTTTTGGTCTGGAAGACTGGGCGCTTGGTCCTCCAGCCACTCACTATGCTTACAGTCTGGGCTTTTTTCGGCCCTTTCTGAAAGGGGTCTGCTTACTCGTTCACCCTGGAGGCACTGGGCATCTGTTATGCAGTGGGTACCATAGACGCCAGTGAGCCACAGAGCTGCAGGATGCTGAGTGGTTCCTTCCATGTGTGGCTGGAAGAAGGGAAAGGTCACCATGGAAAGCTGCTGGAAGGAAATGCCATTGAAGTGGGTCTTGAAGGTCACACGGGCTTTGGAAGAGGGGACCTGCAGCAGGGAAGGTCCGGGGATGCAGGAGAGTATGCCATGGGTAGCTAGAGTGACCTCACTATCTGCACTGTTGGGTATGAGGCTGGAGCAGCCCCGGTGTACGGTGGGGGGACCTGGGACATCAAGGGAGGGGCTTGCACATGGCAGCGGACACTAGCTTTGCAGGCAGGGATGGGAGGAGATGGCTGTTTCACCCTCTTTGAGAGGGAATACTCGTGAGAGAAAATCAGGACTGGGCAAGACTCAGAGGTTGTCCCAGGCTAGAGACCAGAATAATCACTGAGAAGCTGCTAAACACACATCTTCCTGGGGTTAAAACATTTTCTTCTTTGTTTTTTAGTGTCTTCTCTAAAGTTTATATACATATTGATATGTCTCCTTTATAAGTGCCATATTCTTTAGCATGGCTACCCAAAGGACTTTTATCGGTCTCTGTCCATTCCATTTCCTGCCATGACAATTTTTTGGTTCCGAGTGGTTCCGGAAGAGAGTTTTGTGGGGCGTGGGGTGTTGAGAGTTCTGAGATCTAATCGCTTCTTGGCCTTTTGGTTAAGATCAGTGTACAGAGTTCTGAGATCTCTACAAAGCTGCCCCAGCCTTGACTGACTTCACTGCACCCCTCTGTGTATTCTCACTGTAATGATTTCTTTACATTTGTTTATTTGTGTTGGAGGTGCAGTACCCTCGTGCTGGGATTGTCAGTGCTCATCACAGAGGCTTCTCCGTATGGTCCTTTTCTTCGAGAGGTGGCTATTTCTTCTATGTTTATGACCCTAGAACTCACTCTTTGGACCTTGAGACCCCATTTTTCCTCCCTATGTTACCCCCATTCAGCAGCTAATCCTACTTAGCCCCTGGGTCTCATGATGCTCTGGCCCTGTGCCCTCAAATGCTGACATTCATGAGACACTGGAACCGTCGCTAATCGTGTGGATAGTGGGCTTGTCCTCCTGTTGTACGTGCCCCATTGTTCAGCTTTCACAAGTCTCTGCTGCTGTGATTTTCTTTCTAGCCTTGCTCCATTTCCACACATAATCGTCTCATCTTCTCTTGTATGTAAGGACCTTTGCCGATCCCTTACACTTTCACTGCCTTTTCTCATTTTAACCAACTCAAGGAGTCCGGCGGTAGAGCAGCTCAGACCCTTGCTGCGGCTGTTGTTTCTTTGTCTCTGTTGCCACCCATTTCTTGAACTCCCTCCATATGTGTGATGGGTAGAGATTTTCACTTAGGCTTTTGGCCACTTGTTTGGTCAACAAATACAAGGGTGCCATGTGGCAAGCACTGTGCCAGATTTTAGTCTCCTGCTGGGTCCCTGTGTTCTGTGACTCCTGGTGGCACATGTTTTTAAATCCCAACCTGCACAGCAAACAGGCCTTCTGGTATGGGCAGGCACAACCAGGGGCTTCTGCGGCTATAACAAGTGAACAGGATCCCCGGAGACCACAGGGATGAGCCACTGGGTCAGAGCTGGCCTTCCTCTGGTACTTGCCCATTGAATACACACACAGTTTGCTGATGCTTCACTTGGCGACTGACGTTCTGAAAAGCCCAGGCTCTACCCACAGATGCTCTGTGGACCTTGAACAAATCAACCCTGTTCTTTGGCCTTCAGTGTTCTCTTCAGTGACATGACACAATTGAGCTATAGAAGAGGCATCCAGATACCCTGGAAAGACCAAGTAGTAAATAATAATAATAATAATAATAATAATAATAATAAATTTAAGAAAATTTAGCATTTTTTGAAAAGTAGAATTTGAGTAGATGCAGTTTTTGTCACAGCTATTCAACTCTGTCCTTGTAGCTCAAAGTAGCCACTCAATAGACAACAATGTCAACAACTTTGTTCCAACAGAATCTTGTGGGAATCGTGATTAGGAAGAGAGCAGTAGTTAAAGCACTCAACATAATCACGAGGAACAAAGTCTGGATTTCCCAGAACCCATGGAAGTGCCTGGTGTGTGTGGCAGCCTTGGAAGGCAGAGACAGGGGCACTCCAGGCCATCACAAGTAAACCTTATTGCTACTCTGGGTTTGATTAAGCAACTCCGGGTAAGCTCTAGGTTTGACTGAGAGATCCTGCCTCAATGAATAAGGCTGAAAGAACAATCAAGGATGATTCCTGACATTGCTCTCAGACTCTACATGCACTGTATGCATGCTCACCCCACATATGTGCCCACATACACACAAATTTACATGCACACGTTTGCACAACACAAACACACACAAATGGAAGGAGAGAAAAATGGTGGGAATATGGAGGGGATGTGTCTTAGTTATGGTTACTATTGCTGTGATGAAACACCATGACCAAAAGCAACTTGAGGAGGAAAGCATTCATTTCATTCACAGTTCAGTACAACAGCTCATCATCAAAAGCAGTGAGGACAGGAACTCATGCAGGGCAGGAACCTGGAGGCAGGAACCTGAAGCCAGAGGAGAGCTGCTGACTAGCTTGTTTCCCATGGCTTGCTCAGCCTGCTTTCTAATAGAACCCAAGACTACCAGCCTAGGGGTGGCCCCATCCACAAAGGGCTGGGCCCTCTCCCAGAATCAGTAATTAAGAAAATGCCCTACAGGCTTTCCTACAGCCCAATCTTTTTTTAAATTTTTAACATTTTTTATTACATATTTTCCTCAATTACATTTCCAATGCTATCCCAAAAGTCCCCCCTACCCTCCCCCTCACTCCCCTACCCCCCCATTCCCATTTTTTTGGCCCTGGCGTTCCCCTGTACTGGGGCATATAAAGTTTGTGTGTCCAATGGGCCTCTCTTTCCAGTGATGGCCGACTAGGCCATCTTTTGATACATATGTAGCTAGAGTCAAGAGCTCCGGGGTATTGGTTAGTTCATAATGTTGTTCCACCTATAGGGTTGCAGATCCCTTTAGCTCCTTGGGTATTTTCTCTAGCTCCTCCATTGGGAGCCCTGTGATCCATCCAATAGCTGACTGTGAGCATCCACTTCTGTGTTTGCTAGGCCCCGGCATAGTCTCACAAGAGACAGATATATCTGGGTCCTTTCAGCAAAATCTTGCTAGTGTATGCAATGGTGTCAGTGTTTGGAAGCTGATTATGGGGTGGATCCCTGGATATGGCAGTCTCTAGATGGTCCATCCTTTCGTCACAGCTCTAAACTTTGTCTCTGTAACTTCTTCCATGGGTGTTTTGTTCCCAGTTCTAAGAAGGGGCACAATGTCCACACTTTGGTCTTCATTCTTCTTGAGTTTCATGCGTTTAGCAAATTGTATCTTATATCTTGGGCATCCTAAGTTTTGGGCTAATATCCACTTATCAGTGAGTACATATTGTGTGAGTTCCTTTGTGATTGGGTTACCTCACTCAGGATGATGCCCTCCAGGTCCATCCATTTGGCTAGGAATTTCATAAATTCATTCTTTTTAATAGCTGAGTAGTACTCCATTGTGTAAATGTACCACATTTTCTGTATCCATTCCTCTGTTGAGGGGCATCTGGGTTCTTTCCAGCTTCTGGCTATTATAAATAAGGCTGCTATGAACATAGTGGAGCATGTGTCTTTCTTACCGGTTGGGACATCTTCTGGATATATGCCCGGGAGAGGTATTGCTGGATCCTCGCCTACAGCCCAATCTTATGAAGACATTTTCTCAGGGAGACTCCTTCCTCACTGATGAGTCTAGTTTGTGTCAAGTTGACATAAAACTAGTCAGCGCAGGAAGGCTTCTGGCCGTAGTTTCCCAACTTCAGGACTGGGCCCTGGGCTTTGAAGGTAGGTTCCTTAGTCCCTTGTCAGCCTGGACACCTCAAATAACCTTGTTTAGGAGGCCTCTGTATTCTGTAGGGTCTTCAAGATTCTGCTCAGCTCTCATAGGGCTCTGGGGATGGGGTGTTGTACTGAGTCTAAGCAGAGCCCATCTGGAGACTGTATAGAGCTCTGCCCTCTCCTACTGCTCCTTTCCTCCAGAGTCATAAGGAATTAAGAATTTGGAGGGGTTAAGAATGTAGAAAGCCATGGGCAGGCAGAAGTTAACCCTTGCCTTTAATCCCAGCATCCAGGAGGCAGATCTCTGAGTTTGAGGTAAGCCTGGTCTACAGAGTGAATTTCAGGAAAGCCAGGGCTACACAGAGAAACCCTGAATCAAAAAAGGAGGAGGAGGAGGAGGGGGAGGAGGAAGAGGAGGAGGAAGAGGAGGAGGAGGAGGAAGAGGAGGAGGTAATAGAAAAAAAGAGAGAGAGGGGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGGAAGGGAGGAAGGGAGGAAGGAAAAGGGAAAGAAGACTGTGGAAAGCTGGTAGAGAAAGCCAGGTAGGGACACAGGCATTGAGTTGTCTCATGTAACAGCTGTTCTGCTCAATGGGAAAGACAGAGACCAGCAGGGAGGAATGAATTATACCAGAACATTTCTTTCCAACAGCAAATCATTTTTACATGACAATCAAAGGAGCATGAAGATCCTGAATGCCTCCCACTACAGAAGCTAAGAAACCCACAGAGCTGATGCTAGATGTCAAGAGCCTTCAGTGAACCAGGCATTGGTGCCTCACACCTGTAATCCCAGCATTCGGGAGGCTAAGAGGGAAGGATAGTGAGTTTGAGTCTAGCTTGAGCTACAGTAGCATGTTCTTATCTACAAAGGAAGAAATCCTTCAGTGGGAGGGACTCTTGGAGAACCACGTGACTTTTCTGTCAGCCAACTTCTCTTGGCCACTGAAATGGAATGCTGAATACAAGCTCTACAGGGAACTGAGCTTGTCGTGAGTTCATCTGTTAAGAAGTCAGTTTATAAACATGGACAGGATAATTCTAAGAAAACTGCATCAGCTATATAAAAAGAAAGACAGGCACTCATGGCCAAAAGAAAGACTAGAAACATGGGGGTGGTGTGGGGGCAGCTAGAGAGGAAAGCAAAGGGGCCTGCTGGCTGAGTTTGATTTGAAAGTGTTCAATGAAATCAGAAAACATGGTCTTCTATTGGAGAGCAGCGTAGGGAGGAAAGGGGGGGGGCAGTGGCAGAATTGGGATCTGGTGGAGAAAATGAGCTCCCTTGCTGGGGGTGGGGGGGGTGGGGGTTACACCAGAAGCACCTATGGCTGGCCCATGGAACCATTCCCAGGTCTGCCGTGGGGGTTCACACATGGATAGAGCACTTGGTGGAGACAAGCTATAGAGGTGTTAACAAGGTCCTGCCTGCCTACTAATATTCCCAATGGCTGCTGAGACACCCATCTCCAGGACAACATTCATCTCATCACAAAATCGGAGCCCAGTGGGGCCCATTTTGTGTACTTAGGAGTCTCTATAACATCAAGCTGGAAATTGTACATTCTGGAATGTACTGGGATATGATCGGCATGGCGGTGTGTGGTGGGGAGTCTAGGAGATGGGGAGAATGTACTAGGAGAAGCTGGGCTGGAGGTGATAAGTGTGGCAAATTATGTGCCAGCAGAGGCGGGGGTGGTGGTGGTGAATAACCAATGTGGGTGAGCATTGCTGGAGGAGGTCTAGCCTCAGTATCTTCACTGGAGAATGTGGCAATTGGCACAATGACTCTTATGGCCCTTTGATCTCTCATATCCCCTTGTTTTATAAATCGTCACTTGTTATGCACGGGAAGCCAGGCTGGGTGGCTATAGAGTGATGACCATGAATTGTGTGCCCCACTGTGTCTTCCCAG
Seq C2 exon
CGCCGATGGGGATTTCCAAGTGGATGACAAAACCAAAGCTCTACTCAAGTACACAGGAGAAGTGACTTGGATCCCTCCGGCCATCTTTAAGAGCTCATGCAAAATCGATGTGACCTACTTCCCGTTTGACTACCAAAACTGCACCATGAAGTTCGGCTCCTGGTCCTACGACAAGGCAAAGATCGACCTGGTCCTCATTGGCTCCTCCATGAACCTCAAGGACTATTGGGAAAGTGGCGAGTGGGCCATCATTAAAGCCCCGGGCTACAAACATGAAATCAAGTACAACTGCTGTGAGGAGATCTACCAAGACATCACGTACTCGCTATACATTCGCCGCCTGCCGCTGTTCTACACCATCAACCTCATCATTCCGTGCCTGCTCATCTCCTTCCTCACTGTGCTCGTCTTCTACCTGCCCTCCGACTGTGGGGAGAAGGTGACGCTCTGCATCTCCGTGCTCCTCTCCCTGACGGTCTTTCTCCTCGTGATCACCGAGACCATCCCTTCCACCTCACTGGTCATCCCCTTGATCGGGGAGTACCTCCTCTTCACTATGATTTTTGTCACCTTGTCCATCGTCATCACAGTCTTTGTGCTCAACGTGCACTACAGAACTCCGACCACACACACGATGCCCACTTGGGTCAAGGCTGTGTTTTTGAACCTTCTCCCCAGGGTCATGTTTATGACTAGGCCAACCAGCACCGAGGAAGACGCCCCAAAGACGAGGAACTTCTACGGTGCTGAGCTCTCAAACCTGAACTGCTTCAGCCGTGCAGACTCCAAAAGCTGCAAGGAAGGCTACCCCTGCCAAGATGGGACATGTGGCTATTGCCACCACCGTAGGGTAAAAATCTCAAATTTCAGTGCCAACCTCACAAGAAGCTCCAGTTCTGAGTCTGTTGATGCTGTGTTGTCCCTGTCTGCTCTGTCACCAGAAATCAAAGAAGCCATCCAAAGTGTGAAGTATATTGCTGAAAATATGAAAGCACAGAATGTAGCCAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032303-Chrna3:NM_145129:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.005
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=FE(17.4=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=PD(55.6=34.0),PF0293211=Neur_chan_memb=PU(86.7=63.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
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: