MmuINT0139797 @ mm10
Intron Retention
Gene
ENSMUSG00000023033 | Scn8a
Description
sodium channel, voltage-gated, type VIII, alpha [Source:MGI Symbol;Acc:MGI:103169]
Coordinates
chr15:101035435-101045938:+
Coord C1 exon
chr15:101035435-101035705
Coord A exon
chr15:101035706-101039540
Coord C2 exon
chr15:101039541-101045938
Length
3835 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
ATCCTCTGTTCCTCTCTCAGGAA
3' ss Score
10.72
Exon sequences
Seq C1 exon
AACAAAATCCAAGGGATTGTCTTTGATTTCGTCACGCAACAAGCCTTCGACATCGTGATCATGATGCTTATCTGCCTTAACATGGTGACCATGATGGTGGAGACAGACACACAGAGCAAGCAGATGGAGAACATTCTCTACTGGATTAATCTGGTCTTCGTCATCTTCTTCACCTGCGAGTGTGTGCTCAAAATGTTTGCCTTGAGACACTACTATTTCACCATTGGCTGGAACATCTTTGACTTTGTGGTGGTCATTCTCTCCATTGTGG
Seq A exon
GTGAGTGGGTGCAGCCACAGGAAGGGGGGTGAGTGGGCGGGGCCACAGGAAGGGTGAGTGGGCGGGGCCACAGGAAGAGGGGGTGAGTGGGCGGGGCCACGGGAAGAGGGGATGAGTGGGCGGGGCCACAGGAAGGACCAGGACCCCAGGTGTGAGGACCAGATTTCTGAGAGCAGTGACTAGCTCTCAGGGTGGGCTGGTGCCTCTCTTGTCCCTCCTCTGTGTGCACCTCAGCCTCCCAGGCAGGTCGCATGGCTTGCCTGTTCCTACTGAGTGCTCCCGGCACTCTTGGTGCAAATGCTGCAGCTCAGAGGCAAGAGGTAAAATCTGCTGTGCTTTCAAGGGGTTTAAAGTCTACCAGGAAAAGTAGGAGAAACTTGTTTTTCCAATATGGCAATAGCCTGAGAGATGGCCCAGATGGTAAAACGCTTTGCTGAGGGTCTTAGTCAGGGTTACTACTGCTGTGATGAAATCCCATGACCAGAAGCAACTTGGGGAGGAGAGGGTTTTTTCATTCATGGTTCATCAAAGGCAGTGAGGACAGGAACTCAAGCAGGGCAGGGACCTGGAGGCAGGAGCTGATGCAGAGGCCGTGGAGGGATGCTGCTCACTGGCTTGCTCATCATGGTTGGCTCAGCCTGCTTTCTTACAGAACCCAGGAGCACCAGCCCAGGGACAGCCCCTCTCACAAAGGGTCAGGTCCACCTCCATTCACTAATTAAGAAAATGCTCTGCAGGCTTGTCTACAGCCCATTCCTATGGAGACATACCCTAAGTTGAGGCTCCCTCTTTTCCAGCTTGGGTCAAGTTGACATAAGCTGGCCAGAGCACTGTATAAGCCAAGGACCTGAGTGTGATCCCCAGAACCCACGTTCTGGGCATGGTGCACACACTTACAATCCCTCACTAGGGAGGCAGAGACAGTGACGAGCTCTTGGGCTTACCGGATAACCAATGTAGCCTAATTGATGGGTTCCAGGCCAGTAAGAGACCCTATCTCAAAAAACAAGATGGAGCCAGGCAGTGGTGGCACATGCCTTTAATTCCAGCACCTGGGAGGCAAAGGCAGGCGAATTTCTGAGTTCAAGGCCAGTGTGGTCTACAGAGTGAGTTCCAGGACAGCCAGGGCTACACAGAGAAACCCTGTCTTGAAAGGAAAAAAAAAAAAAAAAAAAAAAAAACAAGATGGATAATACCTAAGAAATGACACCCAAGGGTGACCTCTGACCTTGACATGTAAGTACATACACTGCACATGCACGCGCACACACATGTGATGAGAAGAGGGTGGGTGGAGATTATTGAGGTGGCCAGTAACTGGGGCAGTGGTCACAGGTGCTGGCTACTGAGACGGCACTGTGTGAAAGTGTCTCACTGGGGCCTTACAGTGGCACCAGAATGGAGTTGTCTTATTGTCTTCACTGTGTGGGTTGTTTACCTGGGAGGTAAAAGAAGCAGAGCTCAGGCTAGCCCCAAACAGAGCCCAGGCTAGCCCCAAAGTTCCTATTTTCTTCAACCTAAAAATCCAGCAGGTTGGGATTCTGACAGGTCAGGAGAGAAGTGTGAGCCTATTGGCTCTCGTCAGGGAACGCCATTGCCTCCTGGAATGGCATCCCAAGTGCTATGTACGTGCTTTGGTTCCAGGCAGGTGTAACTGACTTCTGATACCACAAAAGAGTGTTTAAAAAAACGACAACCACCACCACACAGGGAGCTAGTCCAGAGCACAGCTGGCCGCACCCTGGTTTCTGAGGTTGATGATTATGAATACAAGGCAGACGACCCCCCTTTGCCTATATCACCCTGTAAGGACAAAATATGTTGGTACATGGGACACTGAGTCTTGGGGCATTTTCCCAAGAGTCCCTAAGCTAGAGTGTCTGAGGTGAGTCTGCACAAGGACTTGGCTTTTGAGAGTTACTGCCTATACTCACCTTCTGAAGTATGCCTCGTGTGACACTGGTTCCCATACTTCCCACTTCTGCCTGCCTGCCTGCCTGCCTGCCTGCCTGCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCTTTCCATCCTTTCTTTTCTTGCTTTTTTTTTAAGACTTAATGTCAGAGCACAATGCTACACACACTTTAATCGCAGGACTCTGGAGACAGAAGCAGGCAGATCTCTGTAAATTCAAGGCCAGCCTGGTCTACATAGCAAGTTCCAGAACAGCCAGGGCTACATAATAAGACCCTGTCTCAAACAAACAAAAAAGACTTATTTCTGTGTGCGTGTTTTGCCTGCATATGTATATTCAAGGAGAGGGCCTTTCCTGGCTTTTTTTTTTCATGTGTTTTGCCTGGAGATATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATCACATGTTTGACTGGTATCCACAGAGGTTCGAAGAGGGTGTTGAATTCTCCAAAATAGGAATTGCAGACAGTTGTGAGCCATCACGTGGTTGCTGGGAATTGAACCCAGGTTCTCTAGAAGAGCAGTGAGTGCTCTTAACCACTGAGCCACCTCTCCAGCCCCAATTTTTATTTTATTATTTTGTGTGCATGTATAGCTGTGTACCATGTGCATGCAATGCCCTGGAGGTCAGAAGTTGTTGGAGCCCCTGTAACTGAAGTTATGGGTAGGATGTGCACAACTATGTGGGTGCAGGGATTGGAACCTGGGTCTTCTGCATGAACAACAAGGGCTTTTAACCACTGTACCATCTCTCCAGCCCTTCTCTTCTGGCTTAAAACCATCAGGGCAGAGATTTTTGAGTTCTGAAGCTGAAGTCTCAATACACTTCCCTGGTTAAAAGCTTCGTGTGAGTGGGTGCTCATCTTGTCTCCTTGGCCCTTAAAAGGCAGAAAGTAGGGCTGATGTAGAGAGAACACCTCCCGCTGCTGGCCTTCCTTCCATGGCCTTCCTTGGACTCTCCCTGCCTCCACCACCCCCAGCTCCCGCCTCTGCCTCTACCCCCCAGTCACTCCCTAGTTTTAAGACAGGTTATCTGTGTAAACTGAGTCACAGGAATGGAAAGAGAAAGGGGAGCCAGATGTTCACTTCACCTCTACCTTTGCCTCCAACCCCAGCCTGCATGCTCCCTGCTTTGAAACCCTTCTGATGTACAGCTTTCAGTTCAAAAATCTTGGGGCACCAAGCAGTAGCCACCCTGGGCAGCCCACTTTAGTCTCCAAGGCAAGCTCTCTCATGGAGATGGGGGATGAGAAACAAAGACTAGGATGTTCTGAGAAGTCAGAGCATCCGCAGAGTAATTAGGACAGGAAGCCAAAGGGTAGCATGTCACAGGGGAGTGTCTCACTCCCTGCTCGTAGATTTAGAAATCTGGTGGAGAATATTTGAGAGCTGCATATGCACGTGCTGAAAAAGTGGATCCTTGAGCAGGAAAGGAAAGATCTGCTTTGTTTTAGCCATAGGAAGGGATAATGCAAAAGCCATTTTTATCTGAGGAACCAGTCTTGCAGACAAAACCGATTAACATCTTAAATATAGAGATACAGAAAGATAGCCCTGTGCCATTTCCTAAATGTAGAGGACACCTTGTTAATGAATTCACACGTAGTAAAACTAGAAAAATACTAAAACCGCTGAGGCCTGCGGAGGCCCCTCGGGTCCCGTGCTGGCCACGGATAAGCCTGCTCACTGAGCACACGGTCTCTGCTTTTCTGTGCTCTCTACGCTTCTATGTTTGGAACATGTCATTGTTTCATTACAAGGATTCTGTGCATTCTACACGGCCCATTGAGCGTCTGCACGGTAAGAGGAGGGAAGGGTTGTGCCCGACTCCAGTAATCACATCCTCTGTTCCTCTCTCAG
Seq C2 exon
GAATGTTCCTGGCTGATATCATTGAGAAGTACTTCGTCTCCCCGACCCTATTCCGCGTCATCCGATTGGCCCGCATCGGGCGCATCTTGCGTCTGATCAAGGGCGCCAAAGGGATCCGCACCCTGCTCTTTGCCTTAATGATGTCGCTGCCCGCCCTGTTCAACATCGGCCTCCTGCTCTTCCTGGTCATGTTCATCTTCTCCATCTTTGGGATGTCCAACTTCGCGTACGTGAAGCACGAGGCCGGCATTGATGACATGTTCAACTTCGAGACGTTTGGCAACAGCATGATCTGCCTGTTCCAGATCACGACCTCTGCTGGTTGGGATGGCTTACTGCTGCCAATCCTGAACCGCCCCCCTGACTGCAGCTTGGACAAGGAGCACCCAGGAAGTGGCTTCAAAGGGGACTGCGGGAACCCCTCCGTGGGCATCTTCTTCTTCGTCAGCTACATCATCATCTCCTTTCTGATCGTGGTAAACATGTACATTGCCATCATCTTGGAGAACTTCAGCGTAGCCACAGAGGAAAGCGCCGATCCTCTGAGCGAGGACGACTTCGAGACTTTCTATGAGATCTGGGAGAAGTTTGATCCTGATGCCACCCAGTTCATCGAGTACTGTAAGCTGGCCGACTTTGCCGACGCCCTGGAGCATCCGCTCCGAGTACCCAAGCCCAACACCATCGAGCTCATCGCCATGGACCTGCCCATGGTGAGCGGAGATCGAATCCACTGCTTGGACATCCTTTTCGCCTTCACCAAGCGAGTCCTGGGAGACAGTGGGGAGTTGGACATCCTGCGGCAGCAGATGGAGGAGCGGTTCGTGGCGTCCAATCCTTCCAAAGTGTCTTACGAGCCTATCACGACCACTCTGCGGCGCAAGCAGGAAGAGGTGTCTGCAGTGGTCTTGCAGCGTGCTTACAGGGGACACCTGGCTAGGCGGGGCTTCATCTGCAGAAAGATCACTTCCAACAAGCTGGAGAATGGAGGCACCCACCGAGAGAAGAAGGAGAGCACCCCGTCCACAGCCTCCCTCCCCTCTTACGACAGCGTGACAAAGCCCGACAAGGAGAAGCAGCAGCGGGCAGAGGAAGGCAGGAGGGAAAGAGCCAAGAGGCAAAAAGAAGTCAGGGAGTCCAAGTGCTAGAGGAGAGGGTAAGGGAAGCTTACGCTGGCTGAACACGGGCAAGTGAAAGCTTGTTTACAAACTTCCGAATCTCACGGACACAGAGCAGCTGCGGAGATGCTGTACTGGAAGACCTATACCAAACATAGTCTGCTTACACGTGACACGGTTGCATCCTGAGCGGTGACCTGCTGGGGACAAAGGACCCTGCTCCCTGGACTCACAGATTTTTTCTATCGCTTGGGCAGACGTTACTGCATGTTCCACACTCGGTCAATGCAACTTAGGAGTAAACTTAACAGGATACAAACAGAGGCGGCTGCCAGGACCAGCAGATCGCCGCTGCAGCCAAATGGATTCTATTTTTTTTTTCATTTTGTTGATTCTCAGAAGCAGAAAGCATCACTTTAAAAGTTTGTTTGTTCATGCAAACAATATTTGCATTCTTACATTAGTTAAGCTAAGCAGCAAAAAGAAACACACACACATACAGACACACAAAGACACACACAGACACATACACACACACACACACATTCAGCCTATGTCACTAATCGTCTGTTTCTTTAACATAACAGCATCTTCTCCACGTGGGTGGCACATGGTTTGGAGACGGTGGGGGAAACAATCAGGGTTTCAGGCTGAGGAGGACTTGCTCAGGCCAATTCCAAATATTGTGCTCGTTCAATGCGTAGAAATGACTTGCATGATGGCATGCTGTGTTCAGAAGTCATGCATGAGGTCCATACACCAACAGACACTAGCAATCCTGTCCCTCGCATTGGCTCAGCCTTCGGACAGGACCCAGCCCTGCACTGTTCACTGTATTTGGAGAAATGGTAAGAGTTCCATACCGGCTGCAATCCTCTCAGTGTACAAGTCTTTCATACACCTCTGGGTAGGGAGACATAATTAACCAATTGACCACTACCAACAAAAACAACCCAACCAAACAAGCAGATGGATCCGCTGCATATACATGTTTGACAGACATCTCTGACATACAGCCATTGTCGTACATTTTGCTGCTCTGTCCAATACATGGGGAGACTCTGGCCCCGAATGGCTTGTACTATTAATGTCACTGTAAAACCAAATCCTAGGGCTAAAAAAAAAAAAAAAAAGAAAAAAGAAAAAAAAAAGAAAAATACTAATAGAAAAAAGAGTTCATTTGTATCTTGCAATATCCTGTTGATTGTTTAGCCTTCATCCTGGAGAACTGACCCTGGGGTAGAGATAAAAGTGCTATGTATTGTAGCATGTTACCTCTAGGGGGCCTTTGGGGGGCTTACAGAAACCTTGTGGGGGGTTTGGGGTGCTTATTGCATTCAGTGTCATGTCTGTCTGCTTTTCTCCAGGCTCAGGTAGATACGGAAAGGGGTTCAGATATTCTGAACTGCCCTGTCCTGCAGAGGGGTTGTCACAAGCTCCTGGCTGCACGGTTCTTCCTGCTTCTGCCATATCCCTCCAGCCAGCAGGGCTCCCCTTCCCAGCCGCTCAGGGCTGGCAAGGACAGCAGTGTTGGCTGAGATAAGGCTGTAGGCTCTTCCATTTGTAGAATAACGCTCTCTAACAGGACCTGATGGAAAGATGGAGCTGCCTCTGGACAGAGCCCACTTGGTCTTGTTTCTACGACGGCTTTTGTGAGAAAGGGACTCAGTAGTCATTCTTTAGGGTGTCACAGCTTCCCCTGGCCTTTCCTTTCAGCTCACCTTGCTTTCTGCTTAGTGGCCTGCCCACTGTTGTTGGGGGATGGCTTCTAGAGGGGCGTCATATCTTCCATTCCATCCCCCACTTTATAGAAGACAGTTCTTAGTCCAGGGTGTCTCAGCTGACCACAAGGTCTCAAAGCCAAGATGCTGCACTCGAATGCCAGAAAGTCTCTCTGAACCAAATCAACACAAACTCTCCCTGAGCATAGTATGGAGGGAATCGAGTGGCCCATCAGTAGACACATCAGATGCACCAGTCCGCCTTGCAGTAGAAGCACTTTGGATGTAATCTCACAGTCCACCTGACTAGTTTTGCATAGAACAAACCACAGCCAGTCAGTGAGCAGAGCTTTCTATCTTCTTGGACCGGTAGACACTGTCCAACTCTCCCAGCTCAGAGAGTGTGTCCGTGTCACCACAGCTAGGACAATTCTAGAGCGCCACCTGCAGGCAACATCGCAAACAGCACAAAACAGGAGCTGACCTGTGGTTATTCTTTTTAAGAGAATTATAAATACTGTAATATATAATTTTATTTTATTGGCATGCCTTTTTGTAAATACAAATTACTAACTTATTAAATAGGAAATGGCTTCTGGCTTACGCCATTGTCATGGTTATTTTTATTTTTTATACTTTCCTTTCTTCTTAGAATTTAGAAGCTGTCAGCCAATGTATACCCCTAACCAGACAGACAGACAAAAAATTTTTTATTGCTAATGGTATTTTCCAAAACAACAAAATATATATATATTTTTGTTCCAATGTGCAATAAATTCTAACCACTTCTATGCAAGATTTGGCTAAACTCAATCATTGTTCTTAGATCTTGAGATGGGCAACAGCTATTTGATCCTGCTAGGAACACCAAGCGCCATGCTAGTAATGTTCAGCGATTAGATCTGACCCTCCTACCCCAGCTCCTGACCCAGCCCAGCAGGCTGTGCCTCAGTTTCTCACACCCTCCAACAGCCTCGCAGGGAAGAAGCCACCTCCGAGTCTGCTTGCTCTAACTTTCACTCTGATCAGACCTCTCCCAGCAATGCCCCTCACCTTCCATCTGTCCACCCAGCCACTCTCTGCCCGCCTCGCTCTCTCTGTCCCACTCCATGATCCTTTCTTGTGAACCACACCATCACCAGCAGTTCACACCCGCAGTTAACAGGCATCGAACCTTAAAGAATCAGCTACGGCAGGTTTTGGTTGGTTTGGTTTTGTTTTGCGTCCTCATTGCGTGAGCAAGTGGCAGGGCTTTGCCAAATATTCATGAAGCCTGTCAAAGAGCGGCAGCAGCCAGTACCACTGCACATATATATATAGATATATAAATATAATATAAATATTTATTTTTTGTAGCCGGGTCCTTGGTGCAGTATTTATATTCCACGATCCTCCTTTAAAAATAATAATAATAATAATAAAAAGGACAAAAAAGCAAAAAGTCATGTGATGCTGTTCATTTAAAACGCAGAGCCAAAGCCCCTGAGCAGTAGTCGCCATGACTACTGGTTGTGTGAAAACACTCCCTTCTTCCTTAACTTCCCTGTGGCTTAGGGTGAGAGGCTGGGAGTCACAGGGCAGAGGGTGGGAGCAGGAAAGCCGAGTCTGAGTGATCTGCTCTCACCATCTGGAAATGAGCCACTTGGGCATCTGAAGCTGCGCACAGAGAGACAAGCTCCCCCTCAGGGCCCCTGAAGCGACATAGAGTGCCCAAAGGGCTTCTCTCATCACCACAACCCACGTAAACTGTAAGAGACCCATAGTGTGCTAGTGAGTGCATGGAGCCTGATGCTGCCCTAAACGATACCTGATCTTTAGAAAAGTAAATCACTATTAGCCAAAAGGAAACAAAATTTACAAAACAAACAAACAAACAAAAAATACGGCCCTTTTTAACCACACAAGGGAAGCCCGTCTTGCTGTGTGTCTGTTTGACTTTCCAGTTATTGAGGTCTGGGAACTGGGACCCTGGAGCTTTGGGGAAGGAGAAAGGAAAACAGAGCCCCCCCCCCCCAATTCTAAGTAGGTACTGCAGAGAAAAGCCAGGTCCTGACCCCCCAGGTCCCTGCTTACTGATTGCATGTGGCATTACCCCTTAGACTGGACCCCCCTCCCTCACCGTTTCCACCCAGCAGAGCCCCCCAGAGATGACTTCAACCAACCTAGCTGGTCTGGCCTTACTTCTGCCTTGTTCATGGTTATGATTTAAGAAAGAAAGAAAAAAAAAAAACCTCTCCTGACCCCCCACCTCCCAAGGCTAGCGCAAGCACGCTGCCCGGCAGCTTCCAGTCCACCAGCTCGTGCTGGCCCTGCCTTCCATCCACTCCCATTATCAGACCGGCAGACTGGGGCTGTCCCCTTCACATTTGTGCAGGGGAGGGGGCATCCCTTGGGGACATCCCTCTCCAGGCCATGTCTCCTGGTCTAGGAACACTCAGGAGGATCTTGAAGTGCCCACTCTAGTCCACTCTAGTAGCTGAACTAGAGAGAGTCGGCTGGTAGGTCAGTCCCTGTCCTTGTCCCTCAGCTCCAGCCTCCAGGCCTTCTGTGGAGGTGAAATTGCCATGGGTCCGGACATGGTGACCTGAACCCTGGGCATCTTCTGGAACGATGCCTCTTTCTTTTCTCAGATGTTGCCCAAAGTTTTGCAAAAAGCTTCCTTCATTTTCAGGTACTCCCCCGCCCCCTAAAGAATTAGCTGCCGTCAGTCAGCCAGGGGGGTCAGGAGAAGAGGAAGTCTGGGTTCAGAGGACAAGACTTGCACCCCGGCCTGTGCTTCTTGCCTCTTCTCAAGACTGCCAAGATTTCCTCCATTAAAACACTCCTGAGGCACCCCTGCCCCTGACCCCACTGCTGTTTGCTGTACATAGAGGCTAAGTGGGGTGAAGTGGGCAGGTGTGCACATGTATGTGTGTGTGTGTGTGAAGAATGTACATAGGTAAAGGGGAGCGTGGTCCAGTGGTTCCAGAAGAGGGACAGAACTGTGTTCCATCCCTAGCTTGACCACTGGCTCGCTGTGTGGCCTTGGGCAAGTCACTTAACCTCTCTGTGCCTCAGTTTCCCCATCTGTAAAATGGGGGTAATAATACTGACCTACCTCACAGGGGTGTTGTGAGGCTTTAACTAGATGTTTTGTAAAGCGTTCTGAGATACAGAGACAAAGGCGCCAGGGAAGGGCAAAGTATTCTTTGGACTTGAGGAAGAGGAACTAGTACCATAAACGCTGCTATTCTGAGAGCCATTTTAAACTGCACTGCTCCACCACCCCCCGCTTCTCATCACCAGGACAGCAGGTCGAGAAATGTCTTTCCTTGCACTTGCTTCTGGGGTTTGTGATTCTTCTGATTTTTCCCTTTGCTGTATCTCCTTCCTTACCCCTCCACTCGTTCCCTGTTCTGTTAATGCGGAAATGGCAGAAATGCTTGAGAAATGAGAATGTATAAGTGGATTGGAAGTTTATAGTCTGGATTTTCAATTTTACTTTGTACTGTACATCTTTTTACTTTAGAATTTGCAATAAAGGGTTACGTCAATCTTGTTTTCAACTCTCCTCTTGGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000023033:ENSMUST00000108909:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.160
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PU(20.5=47.3)
A:
NA
C2:
PF0052026=Ion_trans=PD(79.0=43.3),PF0061222=IQ=WD(100=5.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
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