MmuINT0036284 @ mm9
Intron Retention
Gene
ENSMUSG00000026251 | Chrnd
Description
cholinergic receptor, nicotinic, delta polypeptide [Source:MGI Symbol;Acc:MGI:87893]
Coordinates
chr1:89088095-89088898:+
Coord C1 exon
chr1:89088095-89088139
Coord A exon
chr1:89088140-89088788
Coord C2 exon
chr1:89088789-89088898
Length
649 bp
Sequences
Splice sites
5' ss Seq
CATGTAAGG
5' ss Score
6.57
3' ss Seq
TGTCCTTTTTGGACCTCTAGGCC
3' ss Score
9.3
Exon sequences
Seq C1 exon
AAAGAAGTGGAGGAGACCCTCACCACCAACGTGTGGATAGATCAT
Seq A exon
GTAAGGACACCCTGCCGAAGGTTCCAGGTCCCCTGGTGCTCACTTATGCTGGGGACCACAAGCTCCTATGGACACACCTTTGGGGGAGCTTGACTACAGAGAACCCAACTGCCCTTTTCCACTGAGGCCTCTACTAGCTCCGAGGACATGTCCTAGAAGGCTGGGGTTCCTCCGTGCTAAAATTGCCGCTGTGTCCCGATTTGCTTTGTTGTTGTTTTGAGATGGGGTTCCCTAGCCCTGTTTCCCTGGCTGACCTAGAACTTATGACGTAGACCATGCTGGCCTTGAACTCACAGAGATTCATTTGCATCTGCCTCCCAAGCCCTGGGACTAAAGGTGGGATTAAAGCACAGAGTCACCACCTCTGGTGTGCATTGGAAGTCACTTTTCAAATCAAAATATCAGAACTGATAGAGGTTCACGGCATAGAAACAAGCCAGTCTGGCGTGGAAATTGTGCCCCTTAGTGGTATAATGTATGTCCTACACAACTGTCTGTGACGGGCCTGAGTCTAGTTCTTTATCCATCTCCTCCAAATTTCTTTTGTCCCAACTCTCAGGCTTTGTTTAGACTTCCCTGGGGAAGTGGGGACCGCTGGGAGGGTGGTTAGTGGCCGAATCCACTTCTGATGTCCTTTTTGGACCTCTAG
Seq C2 exon
GCCTGGGTAGACAGCCGTCTACAGTGGGATGCCAACGACTTCGGGAACATCACTGTCCTGCGCCTGCCCCCTGACATGGTGTGGCTACCAGAGATTGTACTGGAGAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026251-Chrnd:NM_021600:3
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(6.3=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(16.2=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:
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: