HsaINT0145950 @ hg38
Intron Retention
Gene
ENSG00000196876 | SCN8A
Description
sodium voltage-gated channel alpha subunit 8 [Source:HGNC Symbol;Acc:HGNC:10596]
Coordinates
chr12:51765671-51769335:+
Coord C1 exon
chr12:51765671-51766027
Coord A exon
chr12:51766028-51768864
Coord C2 exon
chr12:51768865-51769335
Length
2837 bp
Sequences
Splice sites
5' ss Seq
GTGGTTAGT
5' ss Score
4.94
3' ss Seq
TTCCAATGCTACTGGCATAGGTG
3' ss Score
4.12
Exon sequences
Seq C1 exon
CTCCGAGTCTTCAAATTGGCCAAATCCTGGCCCACCCTGAACATGCTAATCAAGATTATTGGAAATTCAGTGGGTGCCCTGGGCAACCTGACACTGGTGCTGGCCATTATTGTCTTCATCTTTGCCGTGGTGGGGATGCAACTCTTTGGAAAAAGCTACAAAGAGTGTGTCTGCAAGATCAACCAGGACTGTGAACTCCCTCGCTGGCATATGCATGACTTTTTCCATTCCTTCCTCATTGTCTTTCGAGTGTTGTGCGGGGAGTGGATTGAGACCATGTGGGACTGCATGGAAGTGGCAGGCCAGGCCATGTGCCTCATTGTCTTTATGATGGTCATGGTGATTGGCAACTTGGTG
Seq A exon
GTTAGTACTAATTTGTAGATATTTTTGTTCTACACCCTGAATATTCTACCCCTGGCCCAGAAGCCCAAGTCCTTCTACTGCTTAGTCCTTCTACTACCCGTCATGTTTGTTGATTTTTATTCTTTCTTGGCCCAGAAACCCTAAGGTACAAATGAAGGAGAGGAGAGAGATACTTACAGAGTGCCTACTTAGTCATGACCCCCACAACTTGTCAACCCTTTTCCTAGAGTTAGGAAAGCAAACTCAGCAAAATTAAGTGACTTTCCCAAATAAATATAGGGCTTGTATTTGAACCTAGACTTTAAAGTCTGTGCCCGTTCGCCTACAGAAGCCTTCCTTTTTCTTAACGACAATTTCTCATCTGTGGTGCTATTGACATCTTGGGCTGGATAATTCTTTGTTGTGGGCTGTCGTGTGCATTGTAGGGTTTAGCAGCGTCCCTCCTGGCCTCTACCCACTAGATGCCAGTAGCATCCTGAGAGCTGTGACAACCAAAAATGTCTGCAGACATTGCCAGATGTCCCTGGGGGGCAAAATTGCCCTCCATTGAGAGCCACTGCTCTAAACCATCTTAGAGTTTTATTTAATTTATATAAATGACAAATCACTTTATTGCTTTACTTTGATCTGTCCACCTGCTCTCTTCTACCTCTGTCTTTAGAAGAGTCACCAACAGATCTTAACACCTTGCTTCTTAAAGTGTGATCTGAGGACTAGCAGCAACAAGATCACTGGAGAGTGTGTTAGAAATGCAGAATTCTAGGCCCCAAATCAGAACTACTGAATCAGAATCTGCATTTTTAACAAGATCCTTGTGTGACTCAAAAGTACACTAAAGTTTGAGAAAGGACTATCTTACAGATCAGGCCCCTAATCCCACCTGCAAGTGTAGGGCAAAGAGGACTGGAAGAAGACAAGCTTATCTGTCCCTTAACATGCTCATCCACATTAGTTCTCTTCCTTTTTCTGCCACAGAGAAGCATGACAGTAAAAGGCTCCTACTCACCAGCCTCTGAACCAGCTACAACTATTCTGTTCTTCCATTTGACCTACAAAAAAAATAGCTACTGTAATGTTTAATTCTTCCTATTCTCCATTCCCAGCCACCTTTCCCTCAGTCCTAATCCCTCTAGTCTTCTCACTACTTCAGTGACTATAACAATGGCTTCCCGGTATGTAGCATGATCAACATTTTCAAGCCCTGACTTTGCCACCCTTTCTTCACTCTCCTGTTCTTATTTGTCTCAAAGACATCTCCCCATGGCTGTCTCCAGATACCTGAGCACTTGATAAATATCAGCTGTTACCACTACCCCCTGATGACACTTTTCAGGTTCCCCTTTGCTCAGTAGTCCTTCTGCCCATCTAGTTTCTAGGAACCTATAACTTTGGAGTATTTTCTGTCTCTTTTCTCTCCACTCCCAGCAAATATCTGATGTGTCTTAAATGCATCTTTCTTCATAGTATTTCTGTGGATATCTTTCTTCATAGTATCTAAGATCTGCCCCTTCCTTTGCATTTCTATAATTCATTCAGTACTTTATAAAAATGTGGTCTCAAGACCACCTGCATCATAATTACACAAGTTTCACTCACAAAAAAAGGCCAAGTCCCAGGCTGTATACCAAATCTACTGAATCCAAATATCTTTAGAGTAGGCTAAGGAAATATTTTTAACAAACATCCACACCCCTCACTCCCTGAGATTCTAATGCATGCTAAGATTTGGGATTTCTGTAGCCTAATCCAGACCCTTATCAATTCATGCATGTAACAGCCTCCTAACTTCTGCCCTTCCCCTCTGTATGTAGTTAGTCTGAATGACTCTTTCAAATCTCTGTCATCATCTGTGACTCCTTTACTCAAGAACCAGTAGTGGATCTAATTAAATAAAATTCAGATCCCTCAGCCTGGCCTTCAAAGCCCTCTCCAACTCACCCGCATTTTACCAACCATATTCCTTTTTAACTCTACAAATGGTGCAGATAATCCGAACACTTATAGTTCATTTATTGTTTCCACCCTCCCACTCTGCACATGACTGTTATCTCCTCCTAAAATGTATGCCTTACTCTTCTTCCCAAGTATGACAAAGTAAGGACCAAGTGTAAATCAAGAAGTGAGCACCTCTCCCACTCCTAAAAAGTAAGTCTTAATAAAAATAAATTAATTAACCTTAATGTTCAATGTAGTAAAATAGGAGATTAAAACAAAAATAAATAAAGCTTGTATCTGATGGCTTGACATTTGGCTATGCAAAAAAATATAAAAGTCACCATCACTGTCTTGCTAAAGCGATTTTATTTTTATAAATGTTAGGAAAACAAAATTTGTTCTTAAAATATGATGACATGAAGTGTATTTCAGTTCTACCTTCTTGGTTTTTTGTATGAAAGGATGGCACTTCAAGCCTCATTTTTTTTTCTGACGTGGGTCCTCTCAAACTCTGCTCATGAATATGTGGCATCTGTACACTTTGTGACCCTCCCCAGTAATGTATATTCACCTTTTTATTTTGGGGAAATGTCCTTCCAAAATGGATACAGCCTTTGTTTTTTCTGATTATAAGAGAAGTAATATATTTTCGGGTACATATATATGTATGTAAAACTATAAAAGACCCAAGAAAAGAGGTGCTAAACTCCTTGTATTACAACCAAAACCAAACACATTCCCACCTGGTAACATGAGCATTAAAATACTACGTGGGCCAAACACAACACAACAGAGCCTCTTTGAGTCTGTCACGTGAAGTCCATTGGCTTCCAGTTTGCAACCCTGAGTTCGATGGATAACTTTTCTGCATTTGTTCCTTTTTTCCAATGCTACTGGCATAG
Seq C2 exon
GTGCTGAACCTGTTTCTGGCCTTGCTCCTGAGCTCCTTCAGTGCAGACAACCTGGCTGCCACAGATGACGATGGGGAAATGAACAACCTCCAGATCTCAGTGATCCGTATCAAGAAGGGTGTGGCCTGGACCAAACTAAAGGTGCACGCCTTCATGCAGGCCCACTTTAAGCAGCGTGAGGCTGATGAGGTGAAGCCTCTGGATGAGTTGTATGAAAAGAAGGCCAACTGTATCGCCAATCACACCGGTGCAGACATCCACCGGAATGGTGACTTCCAGAAGAATGGCAATGGCACAACCAGCGGCATTGGCAGCAGCGTGGAGAAGTACATCATTGATGAGGACCACATGTCCTTCATCAACAACCCCAACTTGACTGTACGGGTACCCATTGCTGTGGGCGAGTCTGACTTTGAGAACCTCAACACAGAGGATGTTAGCAGCGAGTCGGATCCTGAAGGCAGCAAAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000196876:ENST00000354534:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.223
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(62.1=100)
A:
NA
C2:
PF0052026=Ion_trans=PD(4.2=5.1),PF065128=Na_trans_assoc=PU(61.0=84.7)
Main Inclusion Isoform:
NA
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
- Autistic and control brains
- Pre-implantation embryo development