MmuEX0011369 @ mm10
Exon Skipping
Gene
ENSMUSG00000035594 | Chrna5
Description
cholinergic receptor, nicotinic, alpha polypeptide 5 [Source:MGI Symbol;Acc:MGI:87889]
Coordinates
chr9:55002400-55006918:+
Coord C1 exon
chr9:55002400-55002509
Coord A exon
chr9:55004331-55005159
Coord C2 exon
chr9:55006414-55006918
Length
829 bp
Sequences
Splice sites
3' ss Seq
TATTATTTTGTTTCTTCTAGTGC
3' ss Score
9.45
5' ss Seq
GAGGTTTGT
5' ss Score
6.36
Exon sequences
Seq C1 exon
GAATGGATAGATGTAAAGTTAAGATGGAATCCTGATGACTATGGTGGAATAAAAATTATACGTGTTCCTTCAGACTCTCTGTGGATCCCAGACATCGTTTTGTTTGATAA
Seq A exon
TGCAGACGGACGTTTCGAAGGGGCCAGTACGAAAACAGTTGTCAGGTACAATGGCACTGTCACTTGGACGCAGCCAGCAAACTACAAAAGTTCTTGCACTATAGATGTGACCTTTTTCCCATTTGATCTCCAAAATTGCTCCATGAAATTCGGCTCATGGACGTATGATGGATCCCAGGTCGATATAATCCTAGAGGACCAAGATGTCGACAGAACAGACTTTTTTGACAATGGAGAATGGGAAATCATGAGCGCAATGGGGAGCAAGGGGAACCGGACGGACAGCTGCTGCTGGTACCCCTGCATCACCTACTCCTTCGTGATCAAACGGCTGCCTCTCTTCTACACCCTGTTTCTTATCATACCCTGCATCGGGCTCTCGTTTCTGACTGTGGTTGTCTTCTATCTCCCTTCAAACGAAGGTGAAAAGATTAGCCTGTGCACTTCCGTGCTGGTCTCTCTGACTGTCTTCCTGCTGGTGATTGAGGAAATTATACCGTCATCTTCCAAAGTCATACCTCTGATCGGGGAGTACTTGGTGTTCACCATGATCTTCGTGACCCTATCCATTATGGTGACTGTCTTTGCCATCAACATCCACCACCGCTCTTCTTCCACACACAATGCTATGGCGCCGTGGGTTCGTAAGATATTTCTCCACAAGCTTCCCAAACTGCTCTGCATGAGAAGTCATGCCGATAGGTACTTCACTCAGAGAGAAGAAGCCGAGAAAGACGGTGGACCTAAATCTCGGAATACTTTGGAGGCCGCGCTCGATTGCATTCGCTACATCACGAGACACGTAGTGAAAGAGAACGACGTCCGCGAG
Seq C2 exon
GTTGTTGAAGATTGGAAATTCATAGCCCAAGTTCTCGATCGGATGTTTCTATGGACGTTTCTTCTGGTTTCAATCATTGGGACGCTAGGGCTTTTTGTTCCTGTTATTTATAAATGGGCCAATATAATAGTCCCAGTTCACATTGGAAACACAATTAAGTGAAACCAAGAAATTACACTGGACTTAGTGAGCAGTCAAGCAGCTCTTAGGACACGTATGCCATTATGAAAATATTTACAATTTGATATAGGCAGTAACAGATTAGCAGTTTCTGACATTGGCTTAATGTTGTCCATTAGAACTGTAGTAATAGCCTTGAGTACCAACACTGTCCGCCTGCACTAGTGAAGGCCTACCATCGCATCCTGGCAAATCCTACTAACTTGCAACCAGTGACGAAGGGCATCTTTGGAGTACTGGAAAATGCAACTATATTTGAAGACTGTTTAAAGCTTTTCTCCCCACATTTAGTAAAAGCATATATTTGTGTGGTTTTGAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035594-'6-9,'6-6,7-9=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.022 C2=0.000
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=FE(17.6=100)
A:
PF0293118=Neur_chan_LBD=PD(54.9=40.4),PF0293211=Neur_chan_memb=WD(100=47.7),PF0293211=Neur_chan_memb=PU(54.2=14.1)
C2:
PF0293211=Neur_chan_memb=PD(43.1=57.4)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCAGACATCGTTTTGTTTGA
R:
GGACAGTGTTGGTACTCAAGGC
Band lengths:
358-1187
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