MmuINT0139779 @ mm9
Intron Retention
Gene
ENSMUSG00000023033 | Scn8a
Description
sodium channel, voltage-gated, type VIII, alpha [Source:MGI Symbol;Acc:MGI:103169]
Coordinates
chr15:100789771-100799673:+
Coord C1 exon
chr15:100789771-100789862
Coord A exon
chr15:100789863-100799451
Coord C2 exon
chr15:100799452-100799673
Length
9589 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TGGGGGCTCTGTCTCTTCAGGCC
3' ss Score
9.06
Exon sequences
Seq C1 exon
GTATATAACAGAGTTTGTAAACCTAGGCAATGTTTCAGCTCTACGCACTTTCAGGGTACTGAGGGCTTTGAAAACTATTTCGGTAATCCCAG
Seq A exon
GTAAGACGGCCCGGGCTTGGTGTCAGGTGTTGGGTTAGGGCCCTGACGTGACGTATTGTACTTTTTTTTGTTTTGTTGTGGTTTTGTGTGTGTGTTTTTTTTTTTCCTTTGGTGTTTGTGTCTGTACCCGTGTTTGTCATTTGTGTCTGTGTGTGACCTCCCTCACTACAGATATGTGACAGAGTTTGTGGACCTGGGCAATGTCTCAGCGCTGAGAACATTCAGGGTTCTCCGAGCTTTGAAAACTATCTCTGTAATTCCAGGTGAGCGAATTCGTGCACAAGACCAGTCTTGCCACGCTCCTACTTCCTCCCATTCGTAATGTCTGCCACATTTGAACCTGGGATCGGCACATCTGATATGCCTTGTCTCGCTCTGCATGCTTCCCCCTGAGAAGAATTCTCTGGAATGGCCCTTTGGTCCTGAGGCAGACGTCTCGGACCTTGCTTGCCGGGCATGCGGCTCTCATTCCATCCATGCGTTTGAAATAAAAAATAAAAAAAGCACATGCTTATAAACCCTTAGGCCCTCACAGCACCCGAGGAGAGGTGTACCGGGGTGGGCTGTGCCTCTGTATGTGGACCACTCGAATCATGGCCTCATGGAATTACAGTGTCTTTAATATCCACCCCCATTCCACTGCTTGTGATTTCAGACTTCCCGTAGCATGTTCTGCCAACAGCATGTTATCCAAAGACTTGTACTTTTACTGGTGTTATACGAATGTAATCATTTTAGTCAAGGAGCAACTTGCCCAGTTAACTAGTCAGGTCAGACTAGTTAAAGTGGAGAAGGCTTGGAAGTCAGTGAGACAGATTTTAAGTTACCGTCTCCCATATTTTGCAAGTGTCTGCTTCGGTAGAGTGAGACCTGGTAGGTGTCTCCTGGGAGCAGACTCAGGGGTCTCAGGGGTCGCTCTCAAGTGCAAACCCCGGTGAGAGCGTATACAGGTGCTGATTTAAAGTCAAAGGTAAGCCGTAAACAAAAATCGGAGAAACTGGAAGGGACGAAAGGAAGAAGAGAGTGGGCGGAAGACTAGTTCAGTGACAATCTCCTAAAGATATTTGCCTTTTACTCTGACCTGGTCCAGCTAGCTCAGTGGTTCTAAATCTCTTGAGGGTTTTTGGTCCCCTAGAGACACAGATGAAATTTCACAGACACCCCATCCACCATCAGGTTAAGATTCTGTCATCTAAAATCATTGCATCCGGGGAAATAACCTTTCTAAGAACCAACCGGCCTTGAAATCTAGAAGGGAAGGTATGTTTGAGGTTAAGACTGACAGCAACGAGGCAGAGACAAAGGCATGTTGATGCCGTCTGGGCTTTAGCTAGGGTCGAGGAGAGAAAGGGAGACTCCTTAGAGTCCCGCTGTCCCCTGGGTTCTATGGAAACAGGGTGCTGAGCAAGCACCATCGCCTGATCTTGTAGGCCCTCCTCTTGTGGCTGATTACAGAAACCGTTCTTTTATCCTCTATTCAACATCACGCCAGTGTCCTAGGTGAGGGGGTGGGGGTGGGGACACAGAGATCTGAGGTGTGAGGAGAGGAACCACAAGGGTGGTAACCCCCAGGCAGGCCTTCATCTGCAGCAGCTGGACCACCATGTCTCTCCTTTCCCTTTCCCCTTGGTCTCTCTGCTCCTCTGGCCCCTTTAACACGATTCCATGTTCCTGCTCATCTCCCCAGCACACCCTGCGAGGCATCTGTCTCTTTATGTTCTTGTGATCTCAAAACTTCTCTTCCAGAATTAAATCGGAAAGCTGTGTTCTGTTCACTAACTGGGGCAGCAGATGCTCTCCCCAGCCTGGCTCATCACTGCTGTTCTTGTCTCTGCTGTAGGGTTAACTTTCAAGCCGGGAATTTCTGCAAAGTAATTCCTGTCAGGTTACTTAATACTCTGTAGCGTGTGTGCATGCGTGTGCATGTGTAAATATGTAGTGTCTATAGCATAGGGCCTGGTCCACAGCAGTGCTGCATAAATGCTTGTACTAGAAGCACTTACCGTAAAAGCCCAATAAAAGGTCTATGTCCAAGCTTCACGGTCTGAGGTAGATTCTCGGATTACTATTCCCATAAGTGACCCCTCCCCACGCCCCCCCCCCCCCCGAGTCGAGCTTTGGGAAGCTAACTGTGATGAAAAACTAACTTTAACTATAGTAAAGCTAGCAGTCCTGTCAGTGACAAAGCTTTTTCTCGCTGTTAAGCATTTCTGAGGGAAACCCAGGTGTTGGCATCTTCTGTAGAATTCGGAACTTGTCTGTCATTCCCTGGAGGGCTGATGTCCTGTTCCTGTAAGCTATCCATGTTTCCTTCCAAGGTGGGGCCACCTTGTGTACATCAGTGGATCAGCAGCTATCTCTTGCTTAAAAAAAAAAAAAAAAAAAAAAAAGTCAAAGTTACTTTGCTCCCAGGTTGCAGAGCTGGGACACAGTAGCTCTCAGTAAACACTAAAGTCATGTACACAACCACGTCAGAAGGATTTTCCGCTCTCCCCCTTCTCCCATTAGCCATTTGGATCTTAGGCTTTTCCTGAAGCGGTTAGGGCTATGAAAGGAAGCCTGGGCATATCGGTCACTTTTCAGGCTTTCGTGACAGACTGTCTGATGAAAGCAACCGAAGGAGGGAGGGTTCGTGTTGCATAGAGAAGTGCAGTCCATCATGTGAGCAGGTATGGCGGCAGGAACATGGGGCCACTGGTCACACGGGTACACAGCTAGCGCGATGCTCCCTGATGCTCGATGCTTGCCACGCCGCTGGCCTTTGTGTTTAGTGCAGGACCCTAGCTCGTGGAATGGCCACACCCAACCCTGAGGGTAGACTTTCTGCACCTCATTGAAACCTGCATGGACACCCTCTCGGACACGCCCCAGAAGCTTGTCTCTTAGCAATTCCAAACCCTGTCAAGTTGACAGTCCAGATTAGCTGCTTCAGAGGGTAACCAGGAGTTGACACAACACGGAGCCTGTAAGATCTCGTGGCAATCTCTGCAGCTCAGCTCTCATGTGAGAAATGCTTGCCGAGAGCCTTCACCCCATCTTGTCCTGGTTAGCGTTTTGCTTTTGTTTTTGTTTTTTTCAGTTTTACATCTTGGTAGTTGTTTTGAATGTGTCAGGTCAGCCAGGATTCTATTAGTACACGCCAACCTTTTGTATAAGAAGTCTTTCCCCAAGAACCTCCGTGGCACTTACAAAAGACCAATCTCACATTCTGACCCTACTTATTTGATGGCTCAAGATTGGGCAGACAGGCCACTTGTGGCTTCTTCTTTGCTTCGAAGGCATCATCTTGGAGAACGGTGCATACCTCTGTGCTGAGAGAGCCATTGTTTTGGGGGCAGAATTGGTGAGGTTCCCCCTGACATGGAGCTATTCTGCTGGGAAGTTCACATCTTTCTTTCTTAATTTTGTTTTGTTGTTGTTTTTGAGACAGGGTTTCTCTGTGTAGCCCTGGCTGTCCTGGAACTCACTTTGTAGACCAGGCTGGCCTCGAACTCAGAAATCCGCCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGTGTGGGCCACCACTGCTCTCGCTTTTTATTCAGTGGCGGCCAGGGCAGAAAGTGATCATCTGTTGACTCCATCGGAAGTGTCACCTAACACCTGCCCTGATCTCAGGAGTTCTCCTGGAGAGGACCCTTCCTTCACCTTGGTCAGACCTGGAGCGAGGGAGAACTGCAGCTCTGGGTGCTGTGGTGGGCTCCCAGGCGAACCTGCAGCTCCCAGTGCTAAGACATACTGCTGTCTTCAGAGTTGTGGGTCTGCCTTATACTTCTCTTGGACATTTCCTTTCTCTATGTTCATTTCTGTTTCTTCCATTCCTTCCCAGTGAGTTCAGGTAGCAAACAGACAGTGTGAGTGGCTTTTTCTTCCTGCCCAGTTTTCCCAAAGCCTTTTCTTTAAACGTATACATTGCATACGTGGCAGCTTTTCCTGCTTAGCGGCAGGGTAGAAAGATGCTTTAAGACTATAGTCATTGATGGTTTGGTTTTATTTATTTATCTTTGTAGTTTGTGTACTTTGTGACAGGGTTTCTCTGTGTAGCCCTGGCTATACTAGAACTCACTCTGTAGACCAGGCTGGCTTCAGCTCAGAAATCCGCCTGCCTCTGCCTCCCGAGTGCTGGGATTATATAGATTATATAGACTTCTATTATATAGATTATATAGACTTCTATTATATAGATTATATAGGCTTCTTCCACCACCACCAGGCTGATTGTTTCTTTTTAAACATTCAAGTTTTAAATCTTGTTGCTTTTGTGTTTCTCTTCCTCTATGTTGAAAATATTAAGGAAAAATAACCAAAAGTAATAGTGGTCCTAGGTGGAAAAAGAAAAAGAGAGAGCCAGCATCCCCAGGCAGAAAGTGAACGAGGCTTGCTTTACTCCTGGGACTAGCCGGACTGATGGGCACTGGGGGCTCTCCTTTCTTTTTTTAAAAATTTTTTTGAAGATTTATTTATATTATGTATATGAGTACACTGTAGCTGTCTTCAGACACATTAGAAGAAGTATCAGATCCCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGAATTGAACTCAGGACCTCTGGAAGAGCAGTCAGTGCTCTTAACCACTGAGCCATCTCTCCAGCCCGGAGCTCTCCTTTCTGTCTGGCCGAGAGTGATTCCAACATTCATTTCGTGAGAAATCAGCTCACATGGCTTCAAACTGCTTACACGTCTCAACCTGAGCAGCAAATGGGAATTTGAATTAACTTTATGAGTAATTGGACCTCCATAGCCACAGATTGTTCCCAACATGCATGGCTGCTTCTCTGGACACAGCACACAGGTGGCTTTATTAATTTGCTCAGGGGATTTCTGGTTATTGCGCACAGTGACAGAAGGGACCAAAGGTGCCTTTGGACGTAGAGTGGAGTAGAAGCCTGCAGTGCCAGCTTCCCCTATTTCTCCAGACCCCTAAAGTACCCAGCCGCCTCTCCGGAGGCTGTCCTTCGTACCTTGAGTCCTCCTGTCCTTTCAAGGTCTGTGGTAAATGTATGAACCTCTGTGAGGGTACATGCTGATGCTGGTTAACGCTAGCCTCTCGGGAGTTCTTGTGGTCCAATTTGCCCCCACGTGGCTTCTTGCGTGCTCTGTTGTGTAGGAGTCGTTTTGAAGGCGCATTCTGCTCTGATTTGGATAACCAGCTTTTCAGGGTCTTGCTTGTTCTGCTGTGTGGTGCTGTGAGCCAACAGAAGAGGCAGGGCAGCTTCTCTTGACAGCCGGGGCAGTGGCAGTCTACATACTCTGCACAGGCTCACCAGGTCATGAATTCCACCAGGAGTCTTGTGTCTCTGCCGACCGCTGCTTTTGGTGGTTAACTGTATGTTCTCCATGAGCAACCACACCAGGCAACCTGGCTACAATACTGTTGACAGCTCTGCAAATTCGGTGGCTCTGTTATCAGCCCCAGGGAAAGAGGAATTGCCAGTGAGGCCAGTGTACAGCTCGGTGGACTGTCTAGTGCTAAGGACCTGACCAGCACTGCTCTGTAATGTGTCCTCATCCTGCACACCTGGTGTCTTCCTGCACACCTGGTACCTTCCTCCTGCACACCTGGTACCCTCCCCCTGCACACCTAGTGCCCTTCCCCTGCACACCTGGTGCCCTCCCCCTGCACACCTGGTACCTTCCTCCTGCACACCTGGTGCCCTTCCCCTGCACACCTGGTGCCCTCTCCCTGCACACCTGGTACCTTCCTCTTGAACACCTGGTGTCCTCCTGCACACCTGGTGCCCTCCTCCTGCACACCTTGTGCCCTTCCCCTACATACCTGGTACCTTCCTCCTGCACACCTGGTGCCCTCCCCCTGCACACCTGGTGCCCCCCTCCTGCACACCTTGTGCCCTTCCCCTGCATACCTGGTACCTTCCTCCTGCACACCTGGTGCCCTCCCCCTGCACACCTGGTGCCCCCCTCCTGCACATCTGGTACCTTCCTCCTGCACACCTGGTGCCCTTCCCCTGCACACCTGGTGCCCTCCCCCTGCACACCTGGTACCTTCCTCCTGAACACCTGGTGTCCTCCTGCACACCTGGTGCCCTCCTCCTGCACACCTTGTGCCCTTCCCCTGCATACCTGGTACCTTCCTCCTGCACACCTGGTGCCCTCCCCCTGCATACCTGGTGCCATTTCTCAGTCCTTTCCCCTGTGCCATCCTCTCTTTTCCTTTGAGATCTGGATGAGAATCTTGGAGAGCACTTTGCAGATGACTGCTGCTGTTCGTGTGACTTAGAGATTACTCTCGCCTAATTAAGATTTATTTCTCTGAGCCTCTATGCAGTACAAGCAGCCGAAATGTCATCCCCGGCTAAGTTTCCACTTTAAACTTTAAGCTAAACAAACTCACCAGCAAGACAATCTAAGCCTCAGATGTCAGAGCACTTGAGGAAAGTGTCTTTAGTTTTGTGGACTCCTGTTTGCAGATTTCCTCAGCTGTGACGCCTGGCTGATGGAGAAGGGATAGCAAGACACCGGCTTGTGAGGATTCAGGCCCATCTCTAGGAAGTGAGCACCAGGCCTGGGACAGGAGCTCTTCTGGAAAGCTTCAGGCTCCAGTCAGGCACCTCTGAGGCAAGCAGAGCGCAGAGCCAGAAGACCCCAGAGACCCGAGAGACCGGAGAGTTCTTTGTCTCTGCCTCTCTCTCTCCACATGTCTGTTTCTTTCCTTCTGAGTACAAATCCCTCTACGTTCTTAATCACTCTTTAAATGACCCAGAAGGGCTGCTGCAAACTCTCAGTTTTATGTTAGTATTTCTGCCACGTGACCAGATAACTGTTTCTTGTCCTGCTCCAGGTCCTTATAGGAAAGGGTCTGGGTTTAGGTCAGACGACCACGCTGACATCCACAACTCCCAAGAGAGAGTCACCTTGTACAAACAAAGCTGCTGAAAGCACACTGGCAGGGAGGGAGCTGCTTAGAGCGCGTGGCCTAGAATTTCTTCTTACATAGACTTGGAACACCCAAAGATTCCCACCCTGGCAAACCAGGTCAGACTCGTGGTGAAATTATGTGATTAATTGAGTGAATTGTTTTATCTGTTAACGAGCGCTCTTGTTTGGTGTACTTTGTGGTTTCAAACTCTTCTTGCGATTGTAAACAGCAGCGTTGTCAGGGGCATTAGATGATCACCACTGCTCAGACAGGTGCCTGTCTGAAGTCTTTGGAGGAGGGAGCTGCGTAAGATCTCCATCAAAAAGAATTGCAGGGAAAGAAACATGGCAGCCATTCTTCACGACTGCCCAGTTGTCCTGTTCCAGTCTCTGTTCAATAGCTTAGACGCCCAAACTTGAATTTTAATTCCCGGGTAGGCCTGTTCCAATCCAGTCAAAATATAATGAGGAATTCCCATTCTCCAGAAGTGGTGTGGAGATCAGTTTCATAACTCGGGGACCGTTCTTGACGCCTGCCTTCTCCTTGGCGTGCCTAGCTGCACGATCACATGCCTCGGGTACAAATGATGGTTTGACGTCTTTTGCATGGGCAAGCCAAGCTCATTCTCCTTGGCGCTCCTGGAACCTGGGCAAGCTCGCTCCCCCTGGGCGCGATAGCCTACAGCCTGGAGGAAGGCCATGCTGGAAGAAGGCTCAACCCCTGCACACTTTTCCCTTAGGTGCCATTCTGGTTAGGTAGAAAGAAAAGAAGAGAGAAGGAAGAACGAGTCTCTGTCATCTACTCTCTCAGCAGACATTTAAGTGTCTGTCTGGGGCCAGGTCCTCTCCTAGACTAGGCGCAACATCCTTTGCTGCTATCGGCCTCAGGAAGAAGAGTCTGCAGAGCTTACCTCTGAGCATCTAGATAGTCCCTTGCAAAATACAGTGGGCAAAAAAGCACACTCAAACGCCCATTAGATAGATCATCACCACAAGGGCTGAGCCCTGAGCAGTGGCTTTATCCCAACCAAGTCTCTTCAAGGGGGGCACTAGATGTGTAACAGTAACACATCACACGTGCTCTGGGTCATACCCTGCATTAGATGTTTCTCCTATTATTTCACTTAAATATCACGACGGTTCCATGAGATCAGAATTGCAGATCTCTGTAGACAAATAACCCGAGGCTCAGACAGTGATTGATCGTAATCACTGTGTACCAGGTGCTGTTAAGTTTGCCGTATCAAACTCACCCAGCCCTCACAACATCTGATAGCCAGCCATGATAATCTCTTATTTACTTTTTTATTTGTGGTGGTGCTGGGGACGGTGCCAGGGCCTTGCCTGTGCTGGGCAAATGCTCTGGCGTCTGGCACAACCTCTTGAAATTATCCTTTTAAAGGTAGAAATGCTGAGATCCCAGAGCCTGAGTTGTAGCGTCCAGGTGATATGTGTAAGTAGCACGCCTGGTTAGACTCAGCCACGACCCACCCAGCTACGGCAGGCATGCTCACATCAGCCTTCCCCGGGGTGCCCAAAGTTGATCAAAGCTGAGCACCTCCCTGAGGCTGGTGTGTGAAGGCTCAGAGACTCCTCTTGCTCATCTTGTATACCGCAGGAGTCTTGGTGTTTTGTGGGCTGTGTCCTATGTGTCCTGCTGCTGGGCACACTGAGAATTGCCACACACAGACGTTTAACTCAAGCAGTGTAGACTGTATTTTGTGTGCTGTCCGTCACTGACTTCTCCCTAGGCCGTGTGGAAGCGGCCGCCTTAAGGTTTAAATTTAAACATGTTGTCTCACATTTAAACCTCAGGTTGGGACTGGCACGATATAACTCCTTCAGAGAGCATGCGCCCAGCGTGCATGAAGCTTTGAGTCCAATTCCCAGCACCAACCAACAAAATAGAATGACAAAACCTCACCTGACAATGAGTTGCAAGCGTTTTGTTTCTAATCGAGGACACAAGGAGATGAGTATAGCAAGCAGGGATTGCAGACTGTAAAACCTGTATTGATAACAACCTTTTCAATACATGGACATCTCGAGAGCTCACCAGAAGTCCTTGCTTCTTCTTGGCTTATAGACTATCCAACGAATCCCTCTCCAGCTTGCCGGCCTCCTTAATTAATCCGTTTACTCAACAAACATTTATCGTGGGTTAGTTGTTATAGATAAGAGTGCGGACAAGACGGAACCCCCCCCCCCCCAAAAATAGCCATGACAAAAGCTACAGGGGAGATAGAAGGCTCTCTGCTAAATCCACAGCTATGGTGGGAGAGGCAGGCGAGCTGAGAGGCAGGAAGGGGCTTCCCAGGGAAGGGGGAGTTATGTGGAGAGGCTGAGGGAAGGGGTGGAGCCTCTAGGAGGAGGGGCCAGCAGATGTGAGGCCCCTGGAGAGCGAAGGGGAAAGGGGCCACTGAGCTAGAAGGTGCAGCATTTTTAAATTCTTTTTTAAAGGATGATTGAGTTAGAAACGGATACTTCTAGAAAGCGATACTTCTTCCTACTCGTTATTACTCCGTGTAAAGATGCAGTGCCCGTATTTCAAGTGGTGGTCCTCTGGGGAGAGTAGAGCTAGGACCAAGAGAGGGAGGCCAGGGAAAGTAGGCAGGACCTTAGATTGACTCTGGCTCTGGGGGCTCTGTCTCTTCAG
Seq C2 exon
GCCTGAAGACAATCGTGGGCGCCCTCATCCAGTCTGTGAAGAAGCTGTCAGACGTGATGATCCTGACGGTGTTCTGCCTGAGTGTCTTCGCCCTGATTGGCCTGCAGCTCTTCATGGGGAACCTTCGAAACAAGTGTGTCGTGTGGCCCATAAACTTCAACGAGAGCTATCTGGAGAACGGCACCAGAGGCTTCGACTGGGAGGAGTATATCAACAATAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000023033-Scn8a:NM_001077499:6
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(12.4=100)
A:
NA
C2:
PF0052026=Ion_trans=FE(29.5=100),PF057587=Ycf1=PU(19.4=70.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
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]
Other AS DBs: