MmuINT0139800 @ mm10
Intron Retention
Gene
ENSMUSG00000023033 | Scn8a
Description
sodium channel, voltage-gated, type VIII, alpha [Source:MGI Symbol;Acc:MGI:103169]
Coordinates
chr15:100959603-100969242:+
Coord C1 exon
chr15:100959603-100959694
Coord A exon
chr15:100959695-100969020
Coord C2 exon
chr15:100969021-100969242
Length
9326 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TGGGGGCTCTGTCTCTTCAGGCC
3' ss Score
9.06
Exon sequences
Seq C1 exon
ATATGTGACAGAGTTTGTGGACCTGGGCAATGTCTCAGCGCTGAGAACATTCAGGGTTCTCCGAGCTTTGAAAACTATCTCTGTAATTCCAG
Seq A exon
GTGAGCGAATTCGTGCACAAGACCAGTCTTGCCACGCTCCTACTTCCTCCCATTCGTAATGTCTGCCACATTTGAACCTGGGATCGGCACATCTGATATGCCTTGTCTCGCTCTGCATGCTTCCCCCTGAGAAGAATTCTCTGGAATGGCCCTTTGGTCCTGAGGCAGACGTCTCGGACCTTGCTTGCCGGGCATGCGGCTCTCATTCCATCCATGCGTTTGAAATAAAAAATAAAAAAAGCACATGCTTATAAACCCTTAGGCCCTCACAGCACCCGAGGAGAGGTGTACCGGGGTGGGCTGTGCCTCTGTATGTGGACCACTCGAATCATGGCCTCATGGAATTACAGTGTCTTTAATATCCACCCCCATTCCACTGCTTGTGATTTCAGACTTCCCGTAGCATGTTCTGCCAACAGCATGTTATCCAAAGACTTGTACTTTTACTGGTGTTATACGAATGTAATCATTTTAGTCAAGGAGCAACTTGCCCAGTTAACTAGTCAGGTCAGACTAGTTAAAGTGGAGAAGGCTTGGAAGTCAGTGAGACAGATTTTAAGTTACCGTCTCCCATATTTTGCAAGTGTCTGCTTCGGTAGAGTGAGACCTGGTAGGTGTCTCCTGGGAGCAGACTCAGGGGTCTCAGGGGTCGCTCTCAAGTGCAAACCCCGGTGAGAGCGTATACAGGTGCTGATTTAAAGTCAAAGGTAAGCCGTAAACAAAAATCGGAGAAACTGGAAGGGACGAAAGGAAGAAGAGAGTGGGCGGAAGACTAGTTCAGTGACAATCTCCTAAAGATATTTGCCTTTTACTCTGACCTGGTCCAGCTAGCTCAGTGGTTCTAAATCTCTTGAGGGTTTTTGGTCCCCTAGAGACACAGATGAAATTTCACAGACACCCCATCCACCATCAGGTTAAGATTCTGTCATCTAAAATCATTGCATCCGGGGAAATAACCTTTCTAAGAACCAACCGGCCTTGAAATCTAGAAGGGAAGGTATGTTTGAGGTTAAGACTGACAGCAACGAGGCAGAGACAAAGGCATGTTGATGCCGTCTGGGCTTTAGCTAGGGTCGAGGAGAGAAAGGGAGACTCCTTAGAGTCCCGCTGTCCCCTGGGTTCTATGGAAACAGGGTGCTGAGCAAGCACCATCGCCTGATCTTGTAGGCCCTCCTCTTGTGGCTGATTACAGAAACCGTTCTTTTATCCTCTATTCAACATCACGCCAGTGTCCTAGGTGAGGGGGTGGGGGTGGGGACACAGAGATCTGAGGTGTGAGGAGAGGAACCACAAGGGTGGTAACCCCCAGGCAGGCCTTCATCTGCAGCAGCTGGACCACCATGTCTCTCCTTTCCCTTTCCCCTTGGTCTCTCTGCTCCTCTGGCCCCTTTAACACGATTCCATGTTCCTGCTCATCTCCCCAGCACACCCTGCGAGGCATCTGTCTCTTTATGTTCTTGTGATCTCAAAACTTCTCTTCCAGAATTAAATCGGAAAGCTGTGTTCTGTTCACTAACTGGGGCAGCAGATGCTCTCCCCAGCCTGGCTCATCACTGCTGTTCTTGTCTCTGCTGTAGGGTTAACTTTCAAGCCGGGAATTTCTGCAAAGTAATTCCTGTCAGGTTACTTAATACTCTGTAGCGTGTGTGCATGCGTGTGCATGTGTAAATATGTAGTGTCTATAGCATAGGGCCTGGTCCACAGCAGTGCTGCATAAATGCTTGTACTAGAAGCACTTACCGTAAAAGCCCAATAAAAGGTCTATGTCCAAGCTTCACGGTCTGAGGTAGATTCTCGGATTACTATTCCCATAAGTGACCCCTCCCCACGCCCCCCCCCCCCCCGAGTCGAGCTTTGGGAAGCTAACTGTGATGAAAAACTAACTTTAACTATAGTAAAGCTAGCAGTCCTGTCAGTGACAAAGCTTTTTCTCGCTGTTAAGCATTTCTGAGGGAAACCCAGGTGTTGGCATCTTCTGTAGAATTCGGAACTTGTCTGTCATTCCCTGGAGGGCTGATGTCCTGTTCCTGTAAGCTATCCATGTTTCCTTCCAAGGTGGGGCCACCTTGTGTACATCAGTGGATCAGCAGCTATCTCTTGCTTAAAAAAAAAAAAAAAAAAAAAAAAGTCAAAGTTACTTTGCTCCCAGGTTGCAGAGCTGGGACACAGTAGCTCTCAGTAAACACTAAAGTCATGTACACAACCACGTCAGAAGGATTTTCCGCTCTCCCCCTTCTCCCATTAGCCATTTGGATCTTAGGCTTTTCCTGAAGCGGTTAGGGCTATGAAAGGAAGCCTGGGCATATCGGTCACTTTTCAGGCTTTCGTGACAGACTGTCTGATGAAAGCAACCGAAGGAGGGAGGGTTCGTGTTGCATAGAGAAGTGCAGTCCATCATGTGAGCAGGTATGGCGGCAGGAACATGGGGCCACTGGTCACACGGGTACACAGCTAGCGCGATGCTCCCTGATGCTCGATGCTTGCCACGCCGCTGGCCTTTGTGTTTAGTGCAGGACCCTAGCTCGTGGAATGGCCACACCCAACCCTGAGGGTAGACTTTCTGCACCTCATTGAAACCTGCATGGACACCCTCTCGGACACGCCCCAGAAGCTTGTCTCTTAGCAATTCCAAACCCTGTCAAGTTGACAGTCCAGATTAGCTGCTTCAGAGGGTAACCAGGAGTTGACACAACACGGAGCCTGTAAGATCTCGTGGCAATCTCTGCAGCTCAGCTCTCATGTGAGAAATGCTTGCCGAGAGCCTTCACCCCATCTTGTCCTGGTTAGCGTTTTGCTTTTGTTTTTGTTTTTTTCAGTTTTACATCTTGGTAGTTGTTTTGAATGTGTCAGGTCAGCCAGGATTCTATTAGTACACGCCAACCTTTTGTATAAGAAGTCTTTCCCCAAGAACCTCCGTGGCACTTACAAAAGACCAATCTCACATTCTGACCCTACTTATTTGATGGCTCAAGATTGGGCAGACAGGCCACTTGTGGCTTCTTCTTTGCTTCGAAGGCATCATCTTGGAGAACGGTGCATACCTCTGTGCTGAGAGAGCCATTGTTTTGGGGGCAGAATTGGTGAGGTTCCCCCTGACATGGAGCTATTCTGCTGGGAAGTTCACATCTTTCTTTCTTAATTTTGTTTTGTTGTTGTTTTTGAGACAGGGTTTCTCTGTGTAGCCCTGGCTGTCCTGGAACTCACTTTGTAGACCAGGCTGGCCTCGAACTCAGAAATCCGCCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGTGTGGGCCACCACTGCTCTCGCTTTTTATTCAGTGGCGGCCAGGGCAGAAAGTGATCATCTGTTGACTCCATCGGAAGTGTCACCTAACACCTGCCCTGATCTCAGGAGTTCTCCTGGAGAGGACCCTTCCTTCACCTTGGTCAGACCTGGAGCGAGGGAGAACTGCAGCTCTGGGTGCTGTGGTGGGCTCCCAGGCGAACCTGCAGCTCCCAGTGCTAAGACATACTGCTGTCTTCAGAGTTGTGGGTCTGCCTTATACTTCTCTTGGACATTTCCTTTCTCTATGTTCATTTCTGTTTCTTCCATTCCTTCCCAGTGAGTTCAGGTAGCAAACAGACAGTGTGAGTGGCTTTTTCTTCCTGCCCAGTTTTCCCAAAGCCTTTTCTTTAAACGTATACATTGCATACGTGGCAGCTTTTCCTGCTTAGCGGCAGGGTAGAAAGATGCTTTAAGACTATAGTCATTGATGGTTTGGTTTTATTTATTTATCTTTGTAGTTTGTGTACTTTGTGACAGGGTTTCTCTGTGTAGCCCTGGCTATACTAGAACTCACTCTGTAGACCAGGCTGGCTTCAGCTCAGAAATCCGCCTGCCTCTGCCTCCCGAGTGCTGGGATTATATAGATTATATAGACTTCTATTATATAGATTATATAGACTTCTATTATATAGATTATATAGGCTTCTTCCACCACCACCAGGCTGATTGTTTCTTTTTAAACATTCAAGTTTTAAATCTTGTTGCTTTTGTGTTTCTCTTCCTCTATGTTGAAAATATTAAGGAAAAATAACCAAAAGTAATAGTGGTCCTAGGTGGAAAAAGAAAAAGAGAGAGCCAGCATCCCCAGGCAGAAAGTGAACGAGGCTTGCTTTACTCCTGGGACTAGCCGGACTGATGGGCACTGGGGGCTCTCCTTTCTTTTTTTAAAAATTTTTTTGAAGATTTATTTATATTATGTATATGAGTACACTGTAGCTGTCTTCAGACACATTAGAAGAAGTATCAGATCCCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGAATTGAACTCAGGACCTCTGGAAGAGCAGTCAGTGCTCTTAACCACTGAGCCATCTCTCCAGCCCGGAGCTCTCCTTTCTGTCTGGCCGAGAGTGATTCCAACATTCATTTCGTGAGAAATCAGCTCACATGGCTTCAAACTGCTTACACGTCTCAACCTGAGCAGCAAATGGGAATTTGAATTAACTTTATGAGTAATTGGACCTCCATAGCCACAGATTGTTCCCAACATGCATGGCTGCTTCTCTGGACACAGCACACAGGTGGCTTTATTAATTTGCTCAGGGGATTTCTGGTTATTGCGCACAGTGACAGAAGGGACCAAAGGTGCCTTTGGACGTAGAGTGGAGTAGAAGCCTGCAGTGCCAGCTTCCCCTATTTCTCCAGACCCCTAAAGTACCCAGCCGCCTCTCCGGAGGCTGTCCTTCGTACCTTGAGTCCTCCTGTCCTTTCAAGGTCTGTGGTAAATGTATGAACCTCTGTGAGGGTACATGCTGATGCTGGTTAACGCTAGCCTCTCGGGAGTTCTTGTGGTCCAATTTGCCCCCACGTGGCTTCTTGCGTGCTCTGTTGTGTAGGAGTCGTTTTGAAGGCGCATTCTGCTCTGATTTGGATAACCAGCTTTTCAGGGTCTTGCTTGTTCTGCTGTGTGGTGCTGTGAGCCAACAGAAGAGGCAGGGCAGCTTCTCTTGACAGCCGGGGCAGTGGCAGTCTACATACTCTGCACAGGCTCACCAGGTCATGAATTCCACCAGGAGTCTTGTGTCTCTGCCGACCGCTGCTTTTGGTGGTTAACTGTATGTTCTCCATGAGCAACCACACCAGGCAACCTGGCTACAATACTGTTGACAGCTCTGCAAATTCGGTGGCTCTGTTATCAGCCCCAGGGAAAGAGGAATTGCCAGTGAGGCCAGTGTACAGCTCGGTGGACTGTCTAGTGCTAAGGACCTGACCAGCACTGCTCTGTAATGTGTCCTCATCCTGCACACCTGGTGTCTTCCTGCACACCTGGTACCTTCCTCCTGCACACCTGGTACCCTCCCCCTGCACACCTAGTGCCCTTCCCCTGCACACCTGGTGCCCTCCCCCTGCACACCTGGTACCTTCCTCCTGCACACCTGGTGCCCTTCCCCTGCACACCTGGTGCCCTCTCCCTGCACACCTGGTACCTTCCTCTTGAACACCTGGTGTCCTCCTGCACACCTGGTGCCCTCCTCCTGCACACCTTGTGCCCTTCCCCTACATACCTGGTACCTTCCTCCTGCACACCTGGTGCCCTCCCCCTGCACACCTGGTGCCCCCCTCCTGCACACCTTGTGCCCTTCCCCTGCATACCTGGTACCTTCCTCCTGCACACCTGGTGCCCTCCCCCTGCACACCTGGTGCCCCCCTCCTGCACATCTGGTACCTTCCTCCTGCACACCTGGTGCCCTTCCCCTGCACACCTGGTGCCCTCCCCCTGCACACCTGGTACCTTCCTCCTGAACACCTGGTGTCCTCCTGCACACCTGGTGCCCTCCTCCTGCACACCTTGTGCCCTTCCCCTGCATACCTGGTACCTTCCTCCTGCACACCTGGTGCCCTCCCCCTGCATACCTGGTGCCATTTCTCAGTCCTTTCCCCTGTGCCATCCTCTCTTTTCCTTTGAGATCTGGATGAGAATCTTGGAGAGCACTTTGCAGATGACTGCTGCTGTTCGTGTGACTTAGAGATTACTCTCGCCTAATTAAGATTTATTTCTCTGAGCCTCTATGCAGTACAAGCAGCCGAAATGTCATCCCCGGCTAAGTTTCCACTTTAAACTTTAAGCTAAACAAACTCACCAGCAAGACAATCTAAGCCTCAGATGTCAGAGCACTTGAGGAAAGTGTCTTTAGTTTTGTGGACTCCTGTTTGCAGATTTCCTCAGCTGTGACGCCTGGCTGATGGAGAAGGGATAGCAAGACACCGGCTTGTGAGGATTCAGGCCCATCTCTAGGAAGTGAGCACCAGGCCTGGGACAGGAGCTCTTCTGGAAAGCTTCAGGCTCCAGTCAGGCACCTCTGAGGCAAGCAGAGCGCAGAGCCAGAAGACCCCAGAGACCCGAGAGACCGGAGAGTTCTTTGTCTCTGCCTCTCTCTCTCCACATGTCTGTTTCTTTCCTTCTGAGTACAAATCCCTCTACGTTCTTAATCACTCTTTAAATGACCCAGAAGGGCTGCTGCAAACTCTCAGTTTTATGTTAGTATTTCTGCCACGTGACCAGATAACTGTTTCTTGTCCTGCTCCAGGTCCTTATAGGAAAGGGTCTGGGTTTAGGTCAGACGACCACGCTGACATCCACAACTCCCAAGAGAGAGTCACCTTGTACAAACAAAGCTGCTGAAAGCACACTGGCAGGGAGGGAGCTGCTTAGAGCGCGTGGCCTAGAATTTCTTCTTACATAGACTTGGAACACCCAAAGATTCCCACCCTGGCAAACCAGGTCAGACTCGTGGTGAAATTATGTGATTAATTGAGTGAATTGTTTTATCTGTTAACGAGCGCTCTTGTTTGGTGTACTTTGTGGTTTCAAACTCTTCTTGCGATTGTAAACAGCAGCGTTGTCAGGGGCATTAGATGATCACCACTGCTCAGACAGGTGCCTGTCTGAAGTCTTTGGAGGAGGGAGCTGCGTAAGATCTCCATCAAAAAGAATTGCAGGGAAAGAAACATGGCAGCCATTCTTCACGACTGCCCAGTTGTCCTGTTCCAGTCTCTGTTCAATAGCTTAGACGCCCAAACTTGAATTTTAATTCCCGGGTAGGCCTGTTCCAATCCAGTCAAAATATAATGAGGAATTCCCATTCTCCAGAAGTGGTGTGGAGATCAGTTTCATAACTCGGGGACCGTTCTTGACGCCTGCCTTCTCCTTGGCGTGCCTAGCTGCACGATCACATGCCTCGGGTACAAATGATGGTTTGACGTCTTTTGCATGGGCAAGCCAAGCTCATTCTCCTTGGCGCTCCTGGAACCTGGGCAAGCTCGCTCCCCCTGGGCGCGATAGCCTACAGCCTGGAGGAAGGCCATGCTGGAAGAAGGCTCAACCCCTGCACACTTTTCCCTTAGGTGCCATTCTGGTTAGGTAGAAAGAAAAGAAGAGAGAAGGAAGAACGAGTCTCTGTCATCTACTCTCTCAGCAGACATTTAAGTGTCTGTCTGGGGCCAGGTCCTCTCCTAGACTAGGCGCAACATCCTTTGCTGCTATCGGCCTCAGGAAGAAGAGTCTGCAGAGCTTACCTCTGAGCATCTAGATAGTCCCTTGCAAAATACAGTGGGCAAAAAAGCACACTCAAACGCCCATTAGATAGATCATCACCACAAGGGCTGAGCCCTGAGCAGTGGCTTTATCCCAACCAAGTCTCTTCAAGGGGGGCACTAGATGTGTAACAGTAACACATCACACGTGCTCTGGGTCATACCCTGCATTAGATGTTTCTCCTATTATTTCACTTAAATATCACGACGGTTCCATGAGATCAGAATTGCAGATCTCTGTAGACAAATAACCCGAGGCTCAGACAGTGATTGATCGTAATCACTGTGTACCAGGTGCTGTTAAGTTTGCCGTATCAAACTCACCCAGCCCTCACAACATCTGATAGCCAGCCATGATAATCTCTTATTTACTTTTTTATTTGTGGTGGTGCTGGGGACGGTGCCAGGGCCTTGCCTGTGCTGGGCAAATGCTCTGGCGTCTGGCACAACCTCTTGAAATTATCCTTTTAAAGGTAGAAATGCTGAGATCCCAGAGCCTGAGTTGTAGCGTCCAGGTGATATGTGTAAGTAGCACGCCTGGTTAGACTCAGCCACGACCCACCCAGCTACGGCAGGCATGCTCACATCAGCCTTCCCCGGGGTGCCCAAAGTTGATCAAAGCTGAGCACCTCCCTGAGGCTGGTGTGTGAAGGCTCAGAGACTCCTCTTGCTCATCTTGTATACCGCAGGAGTCTTGGTGTTTTGTGGGCTGTGTCCTATGTGTCCTGCTGCTGGGCACACTGAGAATTGCCACACACAGACGTTTAACTCAAGCAGTGTAGACTGTATTTTGTGTGCTGTCCGTCACTGACTTCTCCCTAGGCCGTGTGGAAGCGGCCGCCTTAAGGTTTAAATTTAAACATGTTGTCTCACATTTAAACCTCAGGTTGGGACTGGCACGATATAACTCCTTCAGAGAGCATGCGCCCAGCGTGCATGAAGCTTTGAGTCCAATTCCCAGCACCAACCAACAAAATAGAATGACAAAACCTCACCTGACAATGAGTTGCAAGCGTTTTGTTTCTAATCGAGGACACAAGGAGATGAGTATAGCAAGCAGGGATTGCAGACTGTAAAACCTGTATTGATAACAACCTTTTCAATACATGGACATCTCGAGAGCTCACCAGAAGTCCTTGCTTCTTCTTGGCTTATAGACTATCCAACGAATCCCTCTCCAGCTTGCCGGCCTCCTTAATTAATCCGTTTACTCAACAAACATTTATCGTGGGTTAGTTGTTATAGATAAGAGTGCGGACAAGACGGAACCCCCCCCCCCCCAAAAATAGCCATGACAAAAGCTACAGGGGAGATAGAAGGCTCTCTGCTAAATCCACAGCTATGGTGGGAGAGGCAGGCGAGCTGAGAGGCAGGAAGGGGCTTCCCAGGGAAGGGGGAGTTATGTGGAGAGGCTGAGGGAAGGGGTGGAGCCTCTAGGAGGAGGGGCCAGCAGATGTGAGGCCCCTGGAGAGCGAAGGGGAAAGGGGCCACTGAGCTAGAAGGTGCAGCATTTTTAAATTCTTTTTTAAAGGATGATTGAGTTAGAAACGGATACTTCTAGAAAGCGATACTTCTTCCTACTCGTTATTACTCCGTGTAAAGATGCAGTGCCCGTATTTCAAGTGGTGGTCCTCTGGGGAGAGTAGAGCTAGGACCAAGAGAGGGAGGCCAGGGAAAGTAGGCAGGACCTTAGATTGACTCTGGCTCTGGGGGCTCTGTCTCTTCAG
Seq C2 exon
GCCTGAAGACAATCGTGGGCGCCCTCATCCAGTCTGTGAAGAAGCTGTCAGACGTGATGATCCTGACGGTGTTCTGCCTGAGTGTCTTCGCCCTGATTGGCCTGCAGCTCTTCATGGGGAACCTTCGAAACAAGTGTGTCGTGTGGCCCATAAACTTCAACGAGAGCTATCTGGAGAACGGCACCAGAGGCTTCGACTGGGAGGAGTATATCAACAATAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000023033:ENSMUST00000108909:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.211 C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(12.4=100)
A:
PF0052026=Ion_trans=PD(7.2=30.0)
C2:
PF0052026=Ion_trans=FE(29.5=100),PF057587=Ycf1=PU(19.0=73.3)
Other Inclusion 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
- 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