MmuINT0036212 @ mm10
Intron Retention
Gene
ENSMUSG00000066279 | Chrna10
Description
cholinergic receptor, nicotinic, alpha polypeptide 10 [Source:MGI Symbol;Acc:MGI:3609260]
Coordinates
chr7:102114225-102115114:-
Coord C1 exon
chr7:102114969-102115114
Coord A exon
chr7:102114380-102114968
Coord C2 exon
chr7:102114225-102114379
Length
589 bp
Sequences
Splice sites
5' ss Seq
ATGGTATGA
5' ss Score
6.56
3' ss Seq
CCATTGTCTGCCCCTGCCAGGAT
3' ss Score
7.52
Exon sequences
Seq C1 exon
AGTGCCTGGGAGCTGAGGGTAGACTGGCTCACAAGCTGTTTCGTGACCTGTTTGCCAACTATACAAGTGCCTTGAGACCAGTGGCAGACACAGACCAGACTCTAAATGTGACCCTGGAGGTGACGTTGTCTCAGATCATTGATATG
Seq A exon
GTATGATATGGTAGTGGTGGGATGTGTGAATCGAGGGAAGAAGGGCCATCTCCTAATGATCTTTTTCCTATGTGTTAATATTAATAATGACATGCCGGGCGTGGTGGCGCACGCCTTTAATCCCAGCACTCGGGAGGCAGAGGCAGGCGGATTTCTGAGTTCAAGGCCAGCCTGGTCTACAAAGTGAGTTCCAGGACAGCCAGGGCTGTACAGAGAAACCCTGTCTCGAAAAAACCAAGTAATATATATATGTGTATATATATATATATATACATATATATATATATATATATATATTAATAATGACAGTGGTCATTAACTCCTGCATACCGGTTGATGGCCCAAGATTTTACACTCTGGTATTTACTGAGTGCTCTCCCCCCGCCCCACCTTCCCCAAGCAGGAATTATTGGTGGGATTAATTGGAGATTAAAAACCCCACCAAGGGCACACAAGTTCAAGTCTGGATGGGAACTGGGCTGTTTGAGCAAGCCGGGTTTGTGTGTACTAACGGGAGAGCTCTCTAAGGGAGTATGCATGAAAAGGGCAATGAGTGCAGAGAAACATGTCCATTGTCTGCCCCTGCCAG
Seq C2 exon
GATGAACGGAACCAAGTGCTGACCTTGTACCTGTGGATCCGGCAGGAGTGGACAGACGCCTACCTACATTGGGACCCCAAAGCCTACGGTGACTTGGATGCAATTCGAATTCCCAGCAGTCTAGTGTGGCGACCAGACATCGTACTTTACAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000066279:ENSMUST00000084830:2
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=PU(18.8=79.6)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(24.6=100)
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:
AGTGCCTGGGAGCTGAGG
R:
AAAGTACGATGTCTGGTCGCC
Band lengths:
294-883
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