MmuINT0036238 @ mm9
Intron Retention
Gene
ENSMUSG00000031491 | Chrna6
Description
cholinergic receptor, nicotinic, alpha polypeptide 6 [Source:MGI Symbol;Acc:MGI:106213]
Coordinates
chr8:28518787-28519848:-
Coord C1 exon
chr8:28519804-28519848
Coord A exon
chr8:28518897-28519803
Coord C2 exon
chr8:28518787-28518896
Length
907 bp
Sequences
Splice sites
5' ss Seq
CACGTATGT
5' ss Score
7.26
3' ss Seq
CAAAGCCCTACTTCTTTCAGATC
3' ss Score
7.17
Exon sequences
Seq C1 exon
GATGAAGTCAACCAGATTATGGAGACCAATCTGTGGCTGCGTCAC
Seq A exon
GTATGTGTCCCCCCCTTTGAATGGCGGCAGAATGTATCCACTTAGTGATAAAGCCACCTGCATTAACTTTTTCGCACCCCAACCTATGATAGATAAAGAATATCCTTTTCCTTGCTTTCTCCTAGTCCTTGGGTCAGCTCTGGTTGCAGTTATATTAATATAGGCAGCACATGGGCAGAGCCTGGTGTCTGACATGGAACCCTCTGGCCTTTCTCTTTTAAGCTCCCAGTTCTCTTTGTATCACTTACTGATACAAAGTCTGGTGCTTTCTTTCCTCTTTGATAGCTCCAGGAAGGCAGTGAGCTGAGGTCTGGAGAACACAGGTTACATAAGCAGCAGCAGGGTTTTATAAGTCATACCTTCTCTGCTCTTAAAAGTCTGAATGATGTACACCTCGCACCGTGTTTGTACTAGATTCATCCTCATGCCTACAAAGGATGATTTTTATCGGTAAAAATGAGTTACTACTCCAATTTGAACCTAGTCTATGAAGCACAATGTGAAATCTTAGCTAGTTAGCATGTTATAGATATGCCAAAATCAGCTCAGCTATTTAGCCCCCATGCTACTAAAATTCCCTACTTTTGATAGAAATTGAGGTATTTGTCAAAAATATCTTACCTTTTCATCAAAAAATATGGAACCAATATAAACAATATAAACATTTGGAGGAAGTTATGAATCCCTTTTCCAAAGGGATTCGTATCCATTTTTAAAATTGGAGTGGGTCTGTAGTGGGGACGGGAGGAAGCGGGGTTGGGATGGGGTTCTGAGAGGGCAGCTGGAAACTAATCAGAATAATCAGAACACCCAATTTATATGCATGAAATTGCTAAAGAACAAATTTAACAACTGCTAAAACAAAGTAAAACTACCAGCACAAAAACCAAAGCCCTACTTCTTTCAG
Seq C2 exon
ATCTGGAAGGACTACAGATTGCGTTGGGATCCAACGGAGTATGATGGCATCGAGACACTTCGAGTTCCAGCAGACAACATCTGGAAGCCTGACATCGTTCTGTATAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031491-Chrna6:NM_021369:3
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=0.000
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
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: