MmuINT0036223 @ mm10
Intron Retention
Gene
ENSMUSG00000032303 | Chrna3
Description
cholinergic receptor, nicotinic, alpha polypeptide 3 [Source:MGI Symbol;Acc:MGI:87887]
Coordinates
chr9:55022179-55024190:-
Coord C1 exon
chr9:55024146-55024190
Coord A exon
chr9:55022289-55024145
Coord C2 exon
chr9:55022179-55022288
Length
1857 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
TCCCCACCTCCTTTGGTCAGATC
3' ss Score
7.08
Exon sequences
Seq C1 exon
GATGAAGTAAACCAGATCATGGAAACCAACCTGTGGCTGAAGCAA
Seq A exon
GTAAGTACCCAGGTTCTGTGTACTGCTGCCCCCTGGTGGTGATTGCCTTATTTGTTGCTGGGGGAAAAGGGGAACTGGACTGGACACTACTCCTGGACCCGGGACAGGGTCACCTGACTGCTCTTGAGGGCTGACTCCCTCACTCACATCACAGACAGACAAGCTACAACCTGGAGAGAGAATTCTATCCACAGCCCCCTTACAAAACTGAACAAGCTGGGTGTTGTGGCTCAAGCCTTTGATCCCTGCACTCAGAAGACAGAGGGAGGTAGATCTTTGTGAGTTCAATGCCAGCCTGATATATATAGCAAGTTTCAGGACAGCTAGAGCTATGTAGAGGGACATTAGTCTCAAAAAAAAAAAAAACAAAAAACAAAAAAACAAAACCAAAAACAACCAACCAAAGCTGGTTTGGTCTACAGAATGAGTTCCAGGCCAGCCAGAACCACACACATACACTGGACCCCTGACCCCCAATTCTGGTAACACTCACGAAGACATCCTTCCTTTCTCTTGCAAAGCCAGAGGTGGGTTCTCTTGCATTGTGCATGGGGCAGGAGCAGAGCACTGGTGTTCTGTTCCCACATGTCCTCCCTAGGGAAGCTTTGGCCAGATCTTTTGGGAGACATCACGACATCTGCCAGCTCAGCCAGCCTAGCACTCAGCTCCTACAAGCCTTTGTTTGAAGAGGCTGGCGAGCCAAGCGAAGCGTCCCACCTACATGTTCCTCTGTGGCCACAGCCCCATCCTGTTCCTTCTGGTGGTCTGTGCTCAACACTTTTATGGTCCTGTGGAATCAAGGCTCCATTCTGAGGGGGGGAACTCTTATATTTAGAAAGGATTATTCTGCTTTTTTGAGATGGGGGAGGGTATCCCATGTATTTCATGACAGCCTCAAGCTCACTGTGTGGCTGAGAACCTTGAACTTCTGGCCCTTCATCTTCCTAATGCTTGGATTATAGGAGTATGTCCCCATGCCTGGTTTAGGCGTTGGATGGGACTGAGCCTGTTAGATAAGCATCCTATCAAGTAAGCTAAGTCTCTACCCCACATATTCTGTGTGCGTGTGTGTGTGCGAGTGTGTGTGTGTGTGCATGTGCCTAGGCACATGTGTGAGGGTGTGTGTGCATGAATTTGGAGGTCAGACGTTGATAGAGGATGTCTTCCATGATCAGTCATTGCATCATTTGTTGAAGCAAGGCATCTCACTGAGCCTAGAGCTCAATGATTCTGTTGGTCTAGGGAGCCATCTTACCGCAGCGATTGCGTCTCTGCCTCCCTGAGATTATGAAGTGGGAGGGTTGTGTGCTCAGGGATTCCATCTCTGCTGAGGATGCTCACACTTATGCAACAAATCCCTTAGTCACTGACTCACCCCTCTTTTCCTATTCACGGTCTCATAGTGCATGGCCTAGGACTCCCTATGTAGCTTAAGCTGGCCTTGAACTCACAACCCTCTTGCCTCAGTCTCATGCCACTACACCTGGCTGGTGAGTGATTTCAAAGTATGTAAAAAAAAAAAAAGGAGTTTAATGTATGAACCTAGTAGAAATACAGAAGGCTGCCATCTTGGCTAATGTGATCGAAGGCAATGATTAATGGCTCCCGTTTGGTTGATAAGGATTAAGCTCCCAGTCATGAAGGCTGACTAGAGAGCAGGGGCAACCTGCAGCTTTAGCTCATGCTGTCTGCCTTGCTGCCCCCATGTTGCTCCCTTGGCCAACATTTTCTGCAGCAGGGAAATGGCTCAGTGACCCTAAGAAGGGGTGGTCTGTCACCATGATGGCCATAATGACATGTCTGTCAAGAAAACCTGGCTGGTCCTTCTACTGTCTTCTCCCCACCTCCTTTGGTCAG
Seq C2 exon
ATCTGGAATGACTACAAGCTGAAATGGAAACCCTCTGACTACCAAGGGGTGGAGTTCATGCGAGTCCCTGCAGAGAAGATCTGGAAACCAGACATCGTGCTTTACAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032303:ENSMUST00000034851:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=FE(6.8=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(17.4=100)
Main Inclusion Isoform:
NA
Other Inclusion 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