MmuINT0036225 @ mm10
Intron Retention
Gene
ENSMUSG00000032303 | Chrna3
Description
cholinergic receptor, nicotinic, alpha polypeptide 3 [Source:MGI Symbol;Acc:MGI:87887]
Coordinates
chr9:55010111-55016148:-
Coord C1 exon
chr9:55015137-55016148
Coord A exon
chr9:55012930-55015136
Coord C2 exon
chr9:55010111-55012929
Length
2207 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAT
5' ss Score
8.39
3' ss Seq
TCTTATTTTTTGTTTTCCAGATT
3' ss Score
11.05
Exon sequences
Seq C1 exon
CGCCGATGGGGATTTCCAAGTGGATGACAAAACCAAAGCTCTACTCAAGTACACAGGAGAAGTGACTTGGATCCCTCCGGCCATCTTTAAGAGCTCATGCAAAATCGATGTGACCTACTTCCCGTTTGACTACCAAAACTGCACCATGAAGTTCGGCTCCTGGTCCTACGACAAGGCAAAGATCGACCTGGTCCTCATTGGCTCCTCCATGAACCTCAAGGACTATTGGGAAAGTGGCGAGTGGGCCATCATTAAAGCCCCGGGCTACAAACATGAAATCAAGTACAACTGCTGTGAGGAGATCTACCAAGACATCACGTACTCGCTATACATTCGCCGCCTGCCGCTGTTCTACACCATCAACCTCATCATTCCGTGCCTGCTCATCTCCTTCCTCACTGTGCTCGTCTTCTACCTGCCCTCCGACTGTGGGGAGAAGGTGACGCTCTGCATCTCCGTGCTCCTCTCCCTGACGGTCTTTCTCCTCGTGATCACCGAGACCATCCCTTCCACCTCACTGGTCATCCCCTTGATCGGGGAGTACCTCCTCTTCACTATGATTTTTGTCACCTTGTCCATCGTCATCACAGTCTTTGTGCTCAACGTGCACTACAGAACTCCGACCACACACACGATGCCCACTTGGGTCAAGGCTGTGTTTTTGAACCTTCTCCCCAGGGTCATGTTTATGACTAGGCCAACCAGCACCGAGGAAGACGCCCCAAAGACGAGGAACTTCTACGGTGCTGAGCTCTCAAACCTGAACTGCTTCAGCCGTGCAGACTCCAAAAGCTGCAAGGAAGGCTACCCCTGCCAAGATGGGACATGTGGCTATTGCCACCACCGTAGGGTAAAAATCTCAAATTTCAGTGCCAACCTCACAAGAAGCTCCAGTTCTGAGTCTGTTGATGCTGTGTTGTCCCTGTCTGCTCTGTCACCAGAAATCAAAGAAGCCATCCAAAGTGTGAAGTATATTGCTGAAAATATGAAAGCACAGAATGTAGCCAAAGAG
Seq A exon
GTAAATATGGTTTTTATTATGGCTTCCTTGTGCAGTGATGCATAGGGCAGAGGTTAGAAAATTAGACTCTTGTGGGGTGGGGCAGATTGCCCAGCAATTAAGGGGACTTGCTGCTCTTGGTAAGGATACAAACTTGGTTTCTAGCACCCACATCAGGTGGCCCACAATGCCCATAACTCTACTTCTGGGGAATCCAACACCCTCCTTTGGTCTCCTCAAATGAACACACACACACACACACACACACACACACACACACAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGATTAGCCTTGAGTCAGAAGCTGTGTTCAGACCAGTTAGATGCCCTTGGGTAGATTAGTTACCTCACTTGTAGTCCAGGCTGGCCTTGAACTCACAATTATACTGTCTCAGCTTCCTCTGTAGTGGGATTCCAGGACTGTGTCATTGTATCTTGTCTCAGATTTACACAGGGATAAGGGTCATTTCTTAAATCAGCATTGATATTAAAAGTATTGACATCAAGGAGTCTGCTGAAGCAACCCTGAGACTGCACTGTCTTTACCCCCATTTTTCAGATGAGGACATTGATACCAAGGGAGATGAAATTTGCTCAGACTAGAAAGGAGCAGGGCTTGATTAAAACTAAAGTTTGTCACCTTTTTCTACAGGCTGTCTCCTATAGCCCAGGGGATGTTGTTATTTGTCCTATAGAGGGATGTGTAAGACTCAGGTTGTGGACCTGAGTGCTTATAGACACATCTCATGAATTCAAATAGAGTCACTATGTCAAACAGGGCATTAGGATTCTAACTTGGCCACAACTGTGACTTCATGGTGTCACCAAAAGGACACATTTACTCAAGCTTATAATGGTGAAATAAAAACCACATCTCCCAGGCCATTTCAGTGTGCTTAATTGAATCACAGAATTACACGCTGCTTCTTCATTATGTGATCATTGCTTCAGATCAGTTGACTCCTGGGCTCTCTCTCAGCGCAATTGTGGTTTCTTTGCTTTCTGAATTGTCTGGGAGTTTAATTACCATAGATTCTCCTTCCTGTGTCAAGCCTAAATTGAAGCTCATTATATACAATTATTCTTGCTCTTTCTTCCATCTTTGGCTGTACCATCAGCCATTATGTCTGCTGTTCAGCCTGTCTGGCTGTACAACTGAGGATGTCATTTGGTAAGGTGGGCAGTTTAAAGGGAAGTAGGGACGAAGAAAAATGTTAGGCTTGCCCGATGGGCTTATTTCACGTTTGGAACAGATGTTACACGGAAATTAGAATCTAAAACAAGCATTAGTACTTTGAAACAATGTTAAATGATGTTGAATTAAAGTCATCATTCTAACAAAGGCTCCAGATCTTCCTGTAGAGGTATATTAGCTTTAATAACTGGACTTCAATTTAGAGAAAAATAGATTTTACACACACACTTCTGAGTGGTGGTACATACTTGTAATCACAGCTCTCAGGAGGCTGCGACAGGGTGATGAACAATTTGAGCCCTACCTAAACTGTGTAGACATGAAGACCAGACCTTGCCTTGAAAGAAAAATGTGTTCTCATTAGAAACAGAGCTAACATAGCACATATTTTTCTCCTGTTTCTCCACTACATGAAACTTGAAGTTAGTAGATATATTAGTACTTTTCTTATTGCTGTGACCATTTGCCTGATAAGAAGCAACCTAAGGGAGGGTTTATTTGGACTTACTGCTCCAGGGAAAATGGTCCATCATGCAGTCATGGTGGCAGGAGTGTGAGGCAGCTGGTCACAGTGCACCCAAGGCCATGAAGCAGAGAGATGAAGGCCACCATTCAATTTACTCTTCAATCTGTACTCTTCTAGGACCCTAGCACAGGGAAGGATGCCGACCATGGTTAGGGTAGGTCTTTCCACCTTCATCAGTCTAATCTAGATAGTCCCTCATGGTCACCTCCAGAGGCAAACCTAATTAGATAATCTCCCCTGAGTACGCCCAGTGGCTTGTCTCCTAGGTGATTGTAGATCCTGTCAAGATGACAAATCTATGGTATTAACCATCACCATAGATTTCCTCAGATCATATCAATAAGTAAAAAATATTTCTTATATATTAAATAAAATGGATTCTTTACCTTATAAGACTTAATACTGAAAACTGACCCTTCTCCTTCATGTTCCATTTTCTCTTATTTTTTGTTTTCCAG
Seq C2 exon
ATTCAAGATGATTGGAAGTATGTTGCCATGGTGATTGATCGCATTTTTCTCTGGGTTTTCATCCTGGTGTGCATTTTAGGAACTGCAGGATTATTTCTGCAACCCTTGATGGCCAGAGATGACACATAAACTGTGACCTGTTCGCCAAGGCTCGCTCACCTGTGCTGATGCAAGGGCACTTTCTCAATAGCCCCACACTTTATCCGATCACTGCTTGGAGTTTGCTATTTCAAGGGTTATTTTCCACTCATCTTGATCTTTTTTTGTTGTTGTTGTTAAAAAGAAATGTGGGAGAAAAACATCTAGTTATTTACTAAGGATAAATGAACATTTCACTATCCCCATGATTGAAAACTAGATAGAAATTTTTTCTGTTCATAAATATTAAATCCATTAGCTCAGAATCTCTATAGAACTCATTTGTTCAGCCCATAAACTACTTGAAGTTATAAAGTATTCCAGCAGCACCCCATCACTTCCATTCTTTACTATTTTTTCAAAGGCTTCCACCTCAATTTTGTTGCTGCTAAACCCCACATATCATACCCTGAGATGTGACGCCTGGTCTCACACTCATTGTTAGTAAACTACCATAGTCTGTTCAAGTTGCTAATTTAGAAAAACATCCCATAGAGCCCTGAAAGACTTTTTAATCCCAGCACTCAAGAGGTAGAGTCAGAGGCAGGTTGGATCTCTGTGAATTCCAGGCCAGCCTGGTTTAGTTAGTGAGCCCCAGCCCAACCATGGCTGCAGAGTGAAACACTGTCTCAAAACCACAAGACCACAAACACTGGACAACTAAACGCAAAGTTATTTCTCATAGTTTAGGAGCTTGAGACGTCTAGGATCAAGGTGCCAGCAAGACTATCTGGGGAGGAGTCTTCTTCATAAAGCATACCTTCCAGTGCGTCACCACGTGGCTGAAAGGGCGAGTGTTTCTGGAATCTTGGTTCCCTTTGTCAAGGCATGCCCTCATGACCTCATGACCTCCCAAACAGCATTGCACGGTAGGTTCACACGCGAGCTGCAGGGAGTCATCCAGACCCTAGGATGTCAGGGTAAGGCTTCACTATTATAGCACTAGGGTTTGTGCTCCCGACTCGAGTTGGGATGAGAGATGTGTGGACTTCGGCAGCCGATGGTTCCTGCCCACTAGGATGCCAATAACAGGCCTGTGTGCCTCGGTTGTCAGAGCACCCAGAATGCAGGACGTTGTCAAAATTAGTTATGCTTGAGAAGCTATTTGAACGAATTGAGTTTCCCATATTACATTTCCAAATCTAAACCACAACTCCTAGAGTCCACAGAGACCATTTTGAGTATTCTCACTAGTTTTTTTTTTTTTTTCTGTGCAAAAATAAAACCTGACAATTGCAATTCACTGTGGCTCATATTTCACTAAGTCAAAAGGAAGTGTGTTCTATGAAGTTTGTTGGCTTACAAATATCTCAACAGTGATTGAGATATAAGAGATGAGGGATATACACAAACTAAGATAGCTAACAGCAATTTACATTAAACTAGTTTTTATTAGTGTTTCCTCATATTGTTAAGCACCTGAGATAATAAATTTTAAAGGAGGAAATGTGTATTTGGGCTCATGGTTTCAGTCCACAGCCACTCATGTGGTCTATTCCTTTTGGGCTTGTGATGAGACAATACTTCATAGTAAGAAGTGTCTGATTCATCAATGACATTCACCTCAAAGCAGCCTGGAAGCAGAAAGAATGGGGAAGAAGCTGGGCTCCTGTTTTTCCAAGAAGGACGCACTCCCAATGACCAAGCTCCTTTCTTCTTAGAGGTTCCACACCTCTGAGTAGCACCGAGTAGGCTGGTGACCAAACCTTTGATACACTGGCCTTTGGCACTTACTCAGAATGTGGCCTGGCTTCCAAAGACTTATATCCATTTCATAATTTGTTTTTTGCAAGAGTTCCCAAAGTCTTAACTGCTTCAGAATTGTTCCATAGTCCATGTCAAACTCGGCAGAGAAGCTGTAAAAAGATTATAAATGCCCAGGATACATTGACACTAGGTAAACATTTCTATTCCACAAAGGAGCACAGATGTGTAGAAAAGATCAGATCAAAGCAAGAGCAAAACTAAGCAGGGCAGACATCTGGCCTCTGGCGCCCACAGTGGCAGTATGTGAAATCTCAAGGGCGCAGGCAGTCCTGCTCCTACAGACTCGCTGACTGCATGCAGCCCCTGTGCCTCTCTAGGGCTGGCTGAACTTACCTCACACAGCTCTCCTCAGCAGGCACTCCACAGTTTGTCACCCCTTGCTTTCTGGGGTCTCCATTTTAGATTCAGCTTCACACTCTTGTTTCCAACATATTGCCAGTTTGAGAGCTGATAACCTCTGAAATCTTTGTGGAAAACTCCAGGACTCCACAACTCTTTCACTTTGCATGTCTGTAAAATCGGCATTATGTGGATGATGGCCAGGTTTGCACAAGCTATATATGGCCTACCCGAGTATCTGCAGATGAGGAAGGAGCTTCAGGGCAACATTTTCTAGATTGCCTTATGGAAGGAGGCTGTCCTGGGTCTATTTAGGAAAAATGTCTGAATTCTTTGAGCTTGCACAGGCACAAGTCTGAATAATTCTTGAGGCACCTTCACAGTATTGTATTAACCTGGTGCCAAGCACTTGACTTCCCCTTTAAAATATATTTTTACTCATTGAGAATTTCATACATATTTTGATCATACTCATCCCCTCCTCTTACCACTTCCCAGACACATCCTCTCTTCTTGACTCATTCAACTTTGTGTCCTTTAAAAGTGATTAATTAAAAAATACATTTATCAAGACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032303:ENSMUST00000034851:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.006 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=PD(55.6=34.0),PF0293211=Neur_chan_memb=PU(86.7=63.6)
A:
NA
C2:
PF0293211=Neur_chan_memb=PD(12.5=72.1)
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
- 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