MmuINT0139731 @ mm9
Intron Retention
Gene
ENSMUSG00000032511 | Scn5a
Description
sodium channel, voltage-gated, type V, alpha [Source:MGI Symbol;Acc:MGI:98251]
Coordinates
chr9:119431596-119438268:-
Coord C1 exon
chr9:119438030-119438268
Coord A exon
chr9:119431770-119438029
Coord C2 exon
chr9:119431596-119431769
Length
6260 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGG
5' ss Score
8.92
3' ss Seq
GATTCCTGCTCTCTCTTCAGGTC
3' ss Score
12.02
Exon sequences
Seq C1 exon
AGTTGGAGGAGTCCCACCGTAAGTGTCCACCATGCTGGAATCGCTTTGCCCAGCATTACCTCATCTGGGAGTGCTGCCCACTCTGGATGTCCATCAAGCAGAAGGTGAAGTTCGTGGTCATGGACCCGTTTGCTGACCTCACCATCACCATGTGCATCGTGCTCAACACGCTCTTCATGGCTCTGGAGCACTACAACATGACAGCCGAGTTTGAGGAGATGCTGCAGGTCGGAAACTTG
Seq A exon
GTAAGGACCACCTGTCCTCGGCGCTGAAGTGGGCATCCCTGAAGGGCAAGACGCTCATGGGGAAAGGATTCTGAACATCAAAGGGGCTCTTGAAGGGGTCAGTCCCTGGAGACAGCTTGAAGGAGGGAGCTTTGGAGTCTGGTTTTAGGGAGCAAAGGTGTCTGAGTGGGAGGATGGGGTTAAAGCTTGTGAACGTGCTCAAGTGCTACAATCAAAAGTCTGGCTGAGTGTGAAATGCGTGGAGACTGGCCAGTGGTGAGCAAATGTGTGGGGAAGCACACAGGGCAGGGATCGTACAGAGGAGCATCCAGTGCTGCTGAGTGGGGGGAGAGAGGGGTGAGTGGGTGGGCACAGGAGAGAAGGGAAGAAACAGAGATGAGTGGATTATTGAAACGTAAAGGATGGATGACTCAATAGAGAATAGAACAAAAGAGGTGGTGGGGAGATGGTGGGTGTATAAGTATGGAGGAGAGAGAGAGAGACAAATGGGGTGGGTGGGAGGATGGATGGGATGATAAGTGGATGGATGGGAGGATGGATGGGAGGAGGATGGGTGGATGAGAGGGTATAGATGGGAGGATGAATAGGAGGATGGATGGATGGATGGATGGATGGATGGATGGATGGGAGGATGGATGGGAGGATGGATGGATGGGAGGATGGATGGGAGGATGGATGGGAGGATGAATGGATGGATGGATGGATGGATGGATGGGAGGATGGATGGGAGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGGAGGATGGATGGGAGGATGGATGGATGAAAGGATGGATGGGAGGATGGATGGGAGGAGGATGGATGGATGAGAGGATGGATAGATGGGTGGATGGGAGGATGAATAGGAGGATGGATGGATGGATGGATGGGAGGATGAATAGGAGGATGGATGGATGGATGGATGGATGAGTGGGAGGACAGATGGATAGGAAGATGATTAGAGAGGCGTGAATAAGACTAGAAGGGTGGACAGATGGATAATTGGGGGGAGAAGAAAGGAAGGATAAAAAGATAGACAAATGATTAGAGATAATGGAATGAGAGATGGGTGGATAAATGCGTCAATAATTAGATTGGGAGATAGAAGGTCAGAAGGGAAGATAGTTGGATCTGTAGGTGATGGTGAGTGGATGATTAGAGAGCAGCAGAGAGTGGGAGCAGATTGGATGGGTGGGGGGTGGCTATATAGAGAAGGAAGAAAGGAAAATGAATGTGTGGATAGATGGTGGCGGCCCGTGGGCGGGTAGATAGGTGATGGATAACCGAGTGTGCTTAGTCAGCTACCAACAAGCAGAGCCGGATTTGAATTCTGACTCAGCTCTTACAGACTGTGAACCTTAAGCAAATTACTTAATCCTGGTAATTGGCACCATGAGTATTTGCTGAATTTAATAAATGTAAGAATCAGACGATATGAACCTCATTGGAAGCTAATGAGGCTAAATAAGATAATGTCTGTAATGTGCCTCCCTCCAACTTGCATGAACAACCAGCCCTCAGCATACATGGTGGATGCAGTAGCTGTTGTTATTAGACAGACTGACCCCACATATTCACTTTACAGATGGAGAAACTGAGGCAGGAGGGGTGGCATGGTGGCAGTAGAATCAGGCATGCATCCACGGAATCATGGCACATGGACACTGCCAGCCTCTCTAGATGTCCTCAGCAGAGCAGATCAGTGGATCCAGCCAGTGGAGAGGACCCTGGCTGGGTCTCAGGCCTCTCTCTGGCCCAGCTGCTCCGGTGGCTCTTGAGGTCAGGTAGACCTTGCACACACTGTGAGCTGTGGATATTTTCTTCCTTAACTGCTTTATAAACCCGGGACTTTAAGTGGCCATTTGCAGAATTTATTCAACATTTTTCCAGGCGTTTAAGCCCATTTGGCTATTCTTGGATTTTCCTTCATGTAATTCAAGGGGGAGTGCATCTAACGTGCGGTGTCTCACGGTGCAGCCGGGGGTGTTTATTGAGTGGTCTTTGGTACATCTCGTCATGCAGTCTCCTGGTGCATCTGCAGATGCTGTGTGCCCATCGGATGGGCATTGCAGGATTTAAGTGTAGTTTGCTGGGTAGGACTGGGCAGAGGCTGGTTGTGATTGGAGAACCTGCTCTCCCGAACTGTCGGCTTGTGATTGACAGCTGTACTAAACCAATGTTCGTTAGCGGCAACAGCTGCGTTTCCTGCTGTTTGGATAGTGTGATTGCTAATATGAAAGGCTTTGGTTTTCTTGAATTTTTACATAGTCCAAGTGGCTTAAATATTAAGGCAAAGAAACAAAACACCAAAATAAATAGGTAGGTAATCTCAGTGTGGTGACAGACTCTTCAGGCAGATTCCATAAAAGAGGAGGAGACTGGCTGGTTAAACTGTCCAGCCTATGGCATAATCAAAGGCAACATCGGGGAGAAGGTAGTTTGAAAAGTTTCCCTTTGTGAAGGAATTAAAAATACAGCAGGTTGGGCTGGGGTTGGACATGTGTCTCAGTGGCTAAGAGCACTTGCTGCTCTTGTAGAGGTCCTGGGTTCAGTTCCCACATGGTGGCTCACTACTGTCTGAATCTGCAGACTCCTCCTGCTCTCTCTCTGCATGTACTCGTGAGTACAGAGACAGACAGAAAGACAGGCAGACAGACAGACAGACAGATAGTCTTGGGGGAAAGGTGGCAATTTTTCTACCATCTATTAAGATATAGTATAAAACCCAAAAAGTTATAGCATCTATAAATGTGATAGATAGTGCCCACTGTAGTGTATGGCAAACATAGGTTTAGTCTTCTACTACTACTGCTATCTTGTGATAATGGATAAAACAGCATTAGGTGGGGTTTAGTGGCACACAACTTTAATCCCAGCACTCAGGAGACAGAGGCAGGGGGAGCTCTGAGTTAGAGGCCAGCCTGGTCTACAGAGTAAGTTTCAGTACAGCCAGGGCTACACAGAGAAACTGTGTCTCTAAAAACAAAAGCAAACAAATAAACAAACAAACAGAAAACTGGCATTGGAAGCAAATAAGAAAAAGATGTTAACACTTTATTGTATTGTTTTGTTTGAGGTAGGGTCTCAGGTACCTGGGCTGGCCTTGAACTCACTATAAAGCTAAGAGTGACCTTGAACACCAGATCCTCCTGCCTCCACCCCCTGGTTCTGATATTATGGGCAGACACCATCATGCCCAGCTCTTAAATTATTTCTTAACTTAAAAATAAATGACAAGTCCGGAGAATAACAGCAGTGCACGTAACAGACTGGGAGAGAGCATCCCTAATCTAAAAGGTATATTTATATATAATTCAAAAATAAGCAATCTCTGTAATAGGACAATCCACAATGAGCATGAACAGCAGTTTGGCAAAAGAAGATACACAGAGATAAAGGAATGGCTGATTAAACAGCTGCGTGTGAGGGGCAGAAACACAGGATTAGCATTGGAGGGAGACAGTTGTCACATGCTGCTCATGGAGTTGGTTAAAACCTGTCTCTGAGGACCAGTTAACCACATCAGAAGCCCCACCAATGGTCACTGACACCGTTCCAAATTGAACAATATGTCTGCAAAATGGTACTTATTATGACAGTCTTTCTAGAGAAGACTGTCTACCATAGAGAATTAGTTACAATAGTATGGCACATCTCTGCGGTAGGATATGCCACAGATGCTAATAATAATACTAGAAAAGAAAAGGAAGCTAGCTGTGAGCTGGATTTAATTAGCATGGAAAGGAGTCACAGTGTCACCCATTAAACTTGGGCTTACACTGTGCATCATGTGGTCTCATGAAAGATAAATGCTGAGGTCAAGAAGAGCCAAGTTGAGTCCTGTCTGGACTCCGTGAAACTTTGTCTCAAAAGGATCCCCCTCTTGTAAAAAAAAAAAAAAAACTTTTGTTGTTGTTGCTTTTTAAAGATTTATTTTAATATGTGTGAGTACACTGTAGTTGTCTTCAGACACACCACAAGAGGGCATAGGACACGGTTACGGATGGTTGTGAGCCACCCTGTGGTTGCTGGGAATTGAACTCGGGATCTCTGGAAGAGCAGCCAGTGCTCTTAACCACTGAGCCATCTCTCCAGCCCTGTAAAAAATATTCTTTATTGGTTGTGTGTGTATGAGTGTTTTGTCTGTATGACTGTATGTGTACCACGTGTGTGCAGTGCCCAAGGAGGCCACAAGAGGGCATCAGACCCCCCCCTAACCTGGTATTACAACTGCCATGTGGGTGCTGGGAATTGAACTGGATACTCTGGAAGAGCAATCTGTGCTTTTAACGGTAGAGTCATCTCTCAAACTCCAAGCTCTGCTGTCTGAGGTTTCCCAAAAGCCTCCCACTTACTGAGAAGTCCCCATTCGCACTGATATGCTGAGGACTAGTGGGAGGTAGGAAGCCAACTCGAGGCTCAGATAGATGGAGAAGCTGGCCTAAGACCACAGGGCCTCAGAGCTCTCTCTGTGCCACACATCTGGTTGGTATTCTGTGTTTCTGTGCACACCAACAGCTGGGAGCTTTGCTACGGTGGAGAACAAGAGCCTTTGCTGAGCACTGCCCCCTGAACTGAGGAATCACACCCACGAGCCCATCTGATAGGCCTTAGAAACCTACTCACTCTCACATGCCCAGCAGGTTCTAGGGAAGTCCACGCCTGTATCCTGAAGGAGTAGCCAATGTCCTCTCTTACGGACTCTCAGGGATGCTGAGTGCTTAACTAGGGTCTGAGTACAGATGAGTAAACACTCAGGCTGGGCACCTAAAGCTTCCATGAGGCATGGAAATGAGCACAGTGGTACCAGATGGGGGAGGGGCAGGGTAGCCTGCAGGTCAGAATCTAACTGCTGCTTATTCCCGAGAGAGAAGACTCATACAGATGGATACATACAGGTGCCCAGATTCTACAGCTGCTGTGAGGGGGGCTGAGGAACGTGCTTGAAGGGCCTGGTAGATGGATCAGGAAGCACATGGACTCTGTGCTTTTGAACAGACCTGATAAAGGCAGTGAGTCTTGTGGGTGGAGCAGATGGATGAGGAGACTTGAGGAGATGGGGTCTGTGACATGGAGAAACTATGGGAAAAGGCTTGTATGCTCGCCGTCTATTTGGGTGGAGTCTGGAGGATCTTGAGGTCTCCTCTGAGAAACAGTTCTTTCTCATCAGTGAGCATGGGTCTGCACGGAGCATGTGTGGCAAATCCTCCCACAGCCTGCTTCCCCAGAGCCCCATCTGAACAGAGACGAAAGGCCATGTGGTCTCTGCTCTGGCAAAGTTCCCGAGGGTGCCCAGGCCAGCTCACCTCCCTGCTGGACGCTGATCCCGCTGGCATACCTTCAACCCCCGTGTTTCCATGCCTGCTGCAAGCATGGTACAGTTCCCAGGATGTGCTACCTACCACCTCCCCCCTTCCAGAAGCTCCCGAGTGCCTCCTTCCATGGCCAAGTTACCAGCTCCAGCTTCAGCAGACATACCCTCCTCTGGGGATCATGCCGGTCAGGGCCTTGGGTTGTGTCATGGCTGCCAGCCAACACCACGGCCTGCTGCATTTCAAGCTCCACAAGTCAGCAAACCTAGAAAACCAAACTCTGTTCCTTCCCTCAGGAATGTCTCTGGGAGAGCATGTCCAGCCTTGGACATTGCAGCATGATACGGTCATCTAGGAAGCACACACTGAAGAGCTAGGAATTTTTTAAAAATATATATATTTATTTCAACTTTTAAGTGTACTTCTCATGTTAGGCCTCAGCCACATGTGGGCTGTAGTCCACGTGTCAAACCAACCTGTGACTATGTCCTTCAACAGGCTCTTGAGCATTCTAACTGTGTGACCCTAGACACCAGTTCAGCTCTCGGTGCCTCACTTTCCTTACCTATGAAATGGGGACAGTGAGACTTTCCTCATCCGGATTTTAGATGCGTTTTAAATACACATGGGCTGGGGAGATGGCTCACGGGGAAGGGTGCTTTCTGAGGAGAAAGGAAACCTGGAGAGAGGCAGAAGCAAAGGCCAGGAGCTCTGGAGTGTGTTGTAAGGATGCTGTAGCTGTCCCAGCTGCTCCTAGCTGTTAGACCCGCATGTCTGCAGAGGCCGTGATGAATACGGGTTGTTTCTGAGTTGATGAGCCTGACCAGTCACCAAGAGGCCTCGGGAAAGACACTGGCATGACAAGAGTCAGGAAGGAGGGAACTTGCTGGCCAGGCCAGGGTGTTCAGGACCCGCTGATTCCTGCTCTCTCTTCAG
Seq C2 exon
GTCTTCACGGGAATCTTCACGGCAGAGATGACCTTCAAGATCATCGCCCTTGACCCATACTACTACTTCCAGCAGGGCTGGAATATCTTCGACAGCATCATCGTCATCCTCAGCCTCATGGAGCTGGGCCTGTCTCGCATGGGCAACCTGTCTGTGCTGCGTTCCTTCCGTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032511-Scn5a:NM_021544:14
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:
PF0052026=Ion_trans=PU(1.6=3.8)
A:
NA
C2:
PF0052026=Ion_trans=FE(30.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
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: