DreINT0131564 @ danRer10
Intron Retention
Gene
ENSDARG00000018032 | scn8ab
Description
sodium channel, voltage gated, type VIII, alpha subunit b [Source:ZFIN;Acc:ZDB-GENE-060906-2]
Coordinates
chr6:39420433-39424173:-
Coord C1 exon
chr6:39423817-39424173
Coord A exon
chr6:39420910-39423816
Coord C2 exon
chr6:39420433-39420909
Length
2907 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
CTCCTGTTTCTCTTGACCAGGTG
3' ss Score
10.39
Exon sequences
Seq C1 exon
CTGAGGGTGTTTAAGCTGGCTAAATCATGGCCTACTCTGAACATGCTGATCAAGATCATTGGTAACTCAGTGGGAGCTTTGGGAAACCTGACCCTGGTGCTGGCCATCATCGTCTTCATCTTTGCTGTGGTGGGAATGCAGCTGTTTGGGAAGAGCTATAAGGACTGTGTTTGTAAGATCGCTGAGAGCTGTGAGTTGCCCCGCTGGCACATGAACGACTTCTTCCACTCCTTCCTAATTGTGTTCCGGGTGCTGTGCGGAGAGTGGATCGAGACCATGTGGGACTGCATGGAGGTGGCGGGACAGTCAATGTGCCTCATTGTGTTCATGATGGTGATGGTCATCGGAAACTTGGTG
Seq A exon
GTGAGTTATAAAGTTTGTCTGAAAGTTTTTTACTACTGTTTTCTGTCTCACTTTAAGAAATGTTTGGAAAGGGTATCTTATAGAAAAGTTTGTAGTTCAAAAGGAAGCTTGTGGGTTAAGGCTGGACGATATACAGTTGAAGACAGAATTATTAGCCCCCCTGTTTATTTTTTCCCCCAATTTCTGTTTAACGGAGAGAAGATTTTTTTCAACACATTTCTAATAACTGATTTATTTAATCTTTGCCATGATGACAGTAAATAATATTTGACTAGATATTTTTCAAAACACTTCTATACAGCTTAAAGTGACATTTAAAGGCTTAACTAGGTTAATTAGAGTAACTAGGCAAGTTGGGATAATTAGGCAAGTTATTGTATAACGATGGAAAGAAAAAATATAGCTTAAAGGGGCTAATAATATTGACCTTAAAATGTTTTTAAAAAAATTAAAAACTGCTTTTATTCTAGCCGAAATAAAACAAATAAAACTCTCTCCAGAAGAAAAAAATATTTAAAGTTTCCTTTCTGTGGGGGGCTAATAATTCTGACTTCAACCGTATATGGAACGGTATTACAATCAGCGTTGGGCTCGTTCCCTTAAAAGAGAATTAGTTGTAGTTACAGGGAAAGTAACTATAAAATAAATGTATAAAATAAACTATATAAAACTATAAAATGACTTTAAATAAATACTGTATAAAACATACTATGAAATAATGCTAAAATAAAAATAAAACATTGTACACTAATCCACCCTATTTTAATGTTGTTGTGGGACAATGTGAGAGACAACCTTCAAATTCAACATATCATTATAAATATTAACATAAACATTCTTACCTTTCACATCAACGAGGGAAAAGTAGTGTTTATATTTACAGTTTGCAAAGGCTACATTAGGGTTGGGTCGATAGACAATGCCATCATCCATTGCTGATGGCAGATAGACATCATGATACTCAGCTGGCATCGCGACCCTCTACCCTGCCCCTGTCGCAGCAACAACCCGCTTGCAAAAAATACACATGGCCTCAATTACAAAAATACGTCTTAGTTTTAAAAGGGCATTTTAGAATGAAAGCAATCCTAGTCCACACTGTTTTTTACCTAGCATTTCTGAACAGCTTCTGCGCTTCTGCAGTATATGCGCATATCTGAGCTCTAGGCAATCAGTATGGGGTGCTTAGAGCACAAAACCGACAGAGAGCAGTGCACGTTGTACAGTTTAAGGATGTACAGCTGGACCACTATAACGTTAGTTAAAGGTGATATTTAATAAATCTTGTCTTTATTCAACGACTCAGTCTTTTAAATCTGTCAGGTAATGTCACAGCGTCAGTACACTGCTTCAGTCATTCGCTTTCACGCTTGTACTTAGTCATTTTAGTAAAAACCTCAGAGACTGTTGGTTGGATTCTGTTGGTTGGGCACCTTTTTACCAACCAAGTTTGTTGACGCCATTTTAACGACACAGAAGACTCAGTCTGTTCATGCAAGAGTCCAGCAAAAAAAAGTGTTTGGCAGGTGGTAATTTGTGTGTACATTATCTTTATTTATTTATTGTTTGATTACTTATGAGTAAAACAAAGACCATGCGGGTCAGGTGGTTGATACGGTAGGCTATAAATAATTAAGTCGTTATAAATTAAATAGTTATTCATATACAATTAATTCACCGCTGCCTACAATGACGATGCCATCGTCCATCGCAATGTTTCACATTAGACATCGTACAATGTCAAATTGGTCGATATCACCAAACCCTAGGCTACATTTGAACTTTTTGGATTTGCCATTGTTCTGACTCCTGGTCGTTGGTATGCTCTTGACCGTGTGTGTGCTTGTGTGTGAACACTCGCACTATTCTTCCTTTGATTGGCAAATGATGGAAATGTACTCCATCTAATACAATCATCAGGTTCTCAGTTACACCACGTTCAGAGATGATTATGTGTCCTGCCTCAGCCCTGAACACACACACTCCCACCCCAGAGAAAGAGAGGTCATATGGCTGAGATAATGCTCACATGAAAATTGCTTCAGTGATCGCAGTTAAAGAAATGCACACTTTATTGTCAGCAATGGTAATGATGTTGTAGCGGGAACCAATCAATGAATTACACGTTACTGAAAAAAGTATGGCCATTAGGAACGCTGTTTATTTATAGCACTGTTATTTCCATCACTGATTACATTATTGCTTAGCTGCTATTTCATTAAATATTACTAAAATAATAAATAAAAAAGGAGAAATTTTAATTAAAGTAATAATGTTTGTAGCGGGATTTTACAGTATAATCAAATTACTTTTATTTCAGGATTTTGTTATTACAATATATGTAAAGTTTATGTTGATTTATTTATTGTTTGATATTTTATTATGAAAATCCAAAATAATTTTGAATTGATAAACATTATGAACTGGAGAAAATTGTGGAATTTTTATTTGTTGTTGTTTAGTTTTTAGTTTTTCTAGAATTTTTTATAGTGTAGCTTCTCCTTAATTTTTTCCCTTCAAAAAATAATAAACTTTTGCCATTAAAAAAATACATCTGTTTTGCTATTTTAATTTAAATTTACTAATTTTTCTCTGCAGATGATTTCCGAGCAGTCATCTCACTCACTCTAAAAAAAGCTGATTCTCTCTATATATTTTCTTTTCTCCAGTCATTTGTTGAAATATTTTTCTATATAATTTTTATTCCCAATATTATGCAGACCTATAATTGGCCCCTATATATTATAATAATTAGTGGATTAAATAATGGCCACTTATTTGGAAATCATCAGAAAATGATCATCCCGGATTCATTGTGGCCATTAAAGTGGACATATTAAACAGAAATGAACAAGTTGCACAGCCAATAAATGTGAAATCTAAAGCGCTCCTGTTTCTCTTGACCAG
Seq C2 exon
GTGCTGAACCTGTTCTTAGCCTTGCTGCTGAGCTCCTTCAGTGCTGATAATCTGGCTGCCACAGATGATGACGGTGAGATGAACAACCTGCAGATCTCCGTCATCCGCATTAAGAAAGGCATTGCTTGGTTCAAAATTCATGTACGGCTGCTGGTGGCCCACGTCCTGAAGAAGAAACCTCTGGAAGATGAAGACAAACCGCTTGATGACATGTATGACAAAAAACTGAACTTAATGGGCAACCACACCGGCGTGGAAATCAAATGTGGTGATCTGAACTACCCCAAGAACGGGAATGGCACCACAAGTGGCATTGGGAGCAGCGTGGGAAAGTACATGATTGATGAGGAGCCCATGTCCTTCATCCACAACCCCAACCTGACTGTACGGGTTCCCATTGCTGTTGGAGAGTCCGACTTTGAGAATCTGAACACGGAGGACTTCAGCAGCGAATCGGATGTGGAAAATAGCAAAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000018032:ENSDART00000151299:16
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=0.132
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(62.1=100)
A:
NA
C2:
PF0052026=Ion_trans=PD(4.2=5.0),PF065128=Na_trans_assoc=PU(61.4=84.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
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]