MmuINT0036215 @ mm9
Intron Retention
Gene
ENSMUSG00000022041 | Chrna2
Description
cholinergic receptor, nicotinic, alpha polypeptide 2 (neuronal) [Source:MGI Symbol;Acc:MGI:87886]
Coordinates
chr14:66759797-66761123:+
Coord C1 exon
chr14:66759797-66759842
Coord A exon
chr14:66759843-66760980
Coord C2 exon
chr14:66760981-66761123
Length
1138 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGG
5' ss Score
8.05
3' ss Seq
GTCTTCCCTTGTTTATTCAGCTG
3' ss Score
8.88
Exon sequences
Seq C1 exon
ATGATATGGCCTGGACTCAAAGTCACGCTTGCAGACTCTGGATGGG
Seq A exon
GTAAGGAACACAGTGCAGGACAGTGACAGTTTGGAGGGGAGACAGCAGCAGCTGGTGGGGCTAGACTCTCGGCTGGGTCACTTGGGACAGTGTAGGATAGACTAAAGGATGAAGATGGGAAAACAGCTTCACAGATCCATTGGTAACAATGATGGTTCCCGATTCCTGCATGAATGTGGCCAGTTCTATGTTTAATTCATCTTCTTACACATATTTGTGAAGCCATTGTTAAGAACACACAATATTAAACTATGAATGGCATTCAGAGTTTTAGGAATGCAGTGTGCCTATCACCATTCCAAAACATCTCAGAATATCCAGAACATTCTCATTACGGTCAAAGGGAAATAACATGTCTGTGCTAAGAGCCAGTGTTCTATCTCTAGTCCATATACACAGGGTACCGCACACGGACATTTGGATATTTAAACTCTGTGTGTGTGTGTCCAGGTGCATGTGTGTGGAGTTGCACATATGTGCACATATGTTCAGAGGCCCCAGCCTCAGATGTTCTTCAGGTGTTGTTTTTATTTTTTAGACAGGGTCTCTCACTGGGACTAGGGCTCAAATGAGTAGGTTTGGCTGGGTGGCCAGCAAGTCCCAGAGGTCACTTGTCAACAGACTCATTCAGTATGTGGCTGGCTTCTCTCACATAGCAAGCTTTTAAAGTCCATTCCAGCAACTGCAAATGTCATGTTAGTACTTGATTCCTTTTGATGCCTTCATTGTTTTGGTATGCTGTCCGTCACTCCATCGCTCAACACTGATGGCATTTGCTTGCCTGCATCTTTGGGTCATTGTCGCTAGTAGTCAAATACTGCTGCTGAACGCCTTGTCCAATGTGGTTAGCCCCACTTTATAGATGAAAAGTTGAGACCACGATGGCAGGGAGGCTAGCACCTTCCTCTGTGAAGGTCAGTCATGTCTTAGCTAGTTAGCTAAGTGGCTAACAATCCAATGGCTCTCAAAAAAAGGGGAAGTCTATCTCCTCCGTGAAGCTGAGCAGCCTAGGTGCCCCATAAACCAGGCAGGCCCATTGACAGCCATTTTCTCGCTTCTAAACCGTTATGGAATACGAAAGACAAAGACACTAGATGTCACATCACTTGGCCCTAAGAGTCTTCCCTTGTTTATTCAG
Seq C2 exon
CTGCAGAGAGACAGGGCCTTGAAGAAGCCAGCTCCTTGTAGTCCAACAGAAACCAGGACCCTCTGAAGCCATGGCCCCCTCCCATCCTGCTTTCCAGTTCTGGATACATCTTTATCTCTGGTGTCTGCTTCTGATGCCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022041-Chrna2:NM_144803:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATATGGCCTGGACTCAAAGT
R:
GGCATCAGAAGCAGACACCAG
Band lengths:
183-1321
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: