RnoINT0131641 @ rn6
Intron Retention
Gene
ENSRNOG00000015049 | Scn5a
Description
sodium voltage-gated channel alpha subunit 5 [Source:RGD Symbol;Acc:3637]
Coordinates
chr8:128215875-128219866:-
Coord C1 exon
chr8:128219495-128219866
Coord A exon
chr8:128216008-128219494
Coord C2 exon
chr8:128215875-128216007
Length
3487 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGC
5' ss Score
9.44
3' ss Seq
TGTCTCCTGGTTGCACGCAGACC
3' ss Score
8.41
Exon sequences
Seq C1 exon
AATCAGCTCAGCCTCACCCATGGGCTCAGCCGGACATCCATGAGGCCCCGCTCGAGCCGAGGGAGCATTTTCACGTTCCGAAGACGGGACCAAGGCTCTGAGGCGGACTTCGCAGATGACGAGAACAGCACTGCGGGGGAGAGTGAGAGCCACCGCACATCGCTGCTGGTACCCTGGCCCCTGCGCCATCCCAGCGCCCAAGGACAGCCCGGCCCTGGAGCCTCAGCTCCCGGTTACGTTCTCAATGGCAAAAGGAACAGCACCGTGGACTGCAATGGGGTGGTTTCCTTGCTGGGGGCAGGTGACGCAGAGGCCACCTCCCCAGGGAGCTACCTTCTCCGCCCTATGGTGCTGGACCGACCCCCAGACACG
Seq A exon
GTGAGCCAGCCCCCCGGCCTACGAGCACCAGCCCAGATCTGTCTCCCAAACTGGTGATAGGTACCATCCTCAAAACTGCCTGCTGAAGGTTGATCGAGCATCTAGCGTGTGCTCCATTCTCAGAACATCTCTTCCCTTATAGCTTCCGTGCCATCTGGGCAGGCAGACAAGTCAAGAGAAAAAAGGAGAAGACCGAAAGAAAAGTGTCTATGTAAACATGTGTGGTGTAGAAGTGAGGGAAGGAGTCAGGTTTCACACCTGATGCAGAGTCAGTGCCAAGGTGCCACAGTAGAGCAGTGTCCCAGACCCCGTGCGCTGTGTCATGTGCCTTCTGCATCAGCGGGACAGGAACAAGACATCCAGGCAAGCCTGGGACCAGGGCTAGGTCGCAAAGGGGCCCCACAGAGGATTCTAGACAGCACTCACTCAGTGAGTAGGAAACAGTCCACTACTTTACTAACTTGTAACTCCATGCCAGCCAAAATAGTAAGTGCTGGGAGTGGGGAGCAGGAAGAGTAGAGGCATTTAAGCAGCAACCACAAGAAGAGGAGCCGGGGTGGTTTTCTACGTCTGGCAGGGCTGGTGGGTAGAGTGGTTAGTGCCCAAGCTCCGGACATTAGCCTAGGTATGGATTCTAGATCGCAGCGTGACCACTCTTAGCACGTATTTTTGCTCCTCTGGATTTTAAGTGCCTCATCTGTAGAATAGGAGAGAATTACCCAACGTGGCCAGTGTAGGCAGGGCCAAAGACATACAGGAACATAATCGGCACTGTTAAAAATGTCACAGTACCATGCTTTCCATGCCAAAGTGCGCCACACACGGCAAAAGGGCAGACAGCCTGGGGAAGAGCCTGTCTGGCTTATGGCACCGTGAGGGCAGTGAGGCTGGAATGGAGGCAGCCAAATGAGCTGTTGTCAGCAAGGTGGTCACAGTCACGGAAGGTCTTTCGTGGCACACTGGTGACTGCCCGGTCGGCCCCTGCAACTCCTCATACCAGTGCCTGAAAAGCCCGCTCAGGAAAGGCCTGAATGTGTCGCTCACACATACACAGGCAGGATACAACGATGGGGAAACCACAGGACGATGGGATGTTGGTCAGGAAGGTGGAGGGCCCGGTCCACATGGCCACTAGCTGTGGGTCTTTATATGGGTTAATCATCCGAGCCTCAATTTCCTGCAAAGTGGAAATCAGATTTAACACGTACGTCAGCAGGTGGTAGTGGGACCAAGGGAGCTGAAACAGGTCCAGGGCTTAGGCCAGATCTGGCCGCTTGAGCATGTTACTGGTTACCGTTACTGTGTGCTGTTGACACGCGTGAGCAAAGGCTTCTGGGATGCTTCGCCAAGAGTCCAAGCCCTACATAGGGAGTAAGGGGAGGAACTTCAAGACCCCTAAGGGCTGCGGAGACATCTGGGTCCTTCAGGACCGGTCACCTGGAGGGTGGGGTATCTGGTTTCCAGTCTGGCTCTGGAGCCCCAGCCTCAGGCAGGCAGAGCTGGAGCACTAATAGAATTTCCTAATCCCATTAGGGAGAAAATCATCTCATTGTGCTGCACATGTCGGGAGGAATCCAAGTTCACACACTTCATTACCGGGAACTCTGACTTCACCCATTCTCACTTCTGCAGGGCCCATTTGTAACTTTAAAGGGATTAGCAGGCCGAGGCGGAGTCGTTTGTAAGGTTAAAGGAATTAGCCGTCCAAGATGGAGACATTTGAAAAGTCAAAGAGATTAGCCAGGCAGAAGCCCCTGGGAATGCCTTCCCCACTCCCTGCTGGTCCCCTGTGAGCCCATTTCTAGTCTGCAAACAGAGCCCTGTGCTGGGTACACAGGGCCCCAGTCAGCGTGGGGGGGGGGGGGGGTGGAGGGTGGGAGGAGCCTAGGGAGTGCCGGCCCCGCCCCTTAGCCAGCAGTCAACTCAGCGACTACTGACTACACTGAAGCTCATAAAGTGAGCAGGGACCTGTCTGTCACTTTCCACTCTGCTCAGGCCCCAGTTCCACAAGTATCAGCACTTTGACAACTGGGTGTTCATTCTCCAAACCTTTGTCTTGCTCTCGGTACATGTCCTCCTGGGCATGTACCCAGATCAGCTCCTCACTGTTGTCTGTGTCAGAGTTCAGGGTTGGGCTGGAGCCATGATGGATTTTAGTAATCTTCCATTGGCTGGTCGGTTCGTTTAGTTACTAGGAACAGTGCGCTCGAAGGACCGTGCCTCTCTGCATCTTGGGTGTGTGTATAAAAGTGTTTATGAGGGTAGATTGCAAGACAAGGGATCTCAGGACCATTTAAAAATTCTAAGTAGGGGCTGGAGAGATGGCTCAGTGGTTCCGAGCACTGGCCGCTCTTCCAGAGGACCAGAGTTTGAGTCCCAGCACCCACGTGGAGGCTCACAACTATCGACCACCCCAGTTCCAGGGATCCGATGTCCTCGTCTAGTGTTTACGGACACCCAGCACACACACGCGCACACACACACGGTGCACCGACATATACACGCAGGCAGAACACTCATGCATATGAAATACAATCATTAAAAATTAAAATCTTCTGGTTTAGACCCAGGCACATCTCCATATGATGCGGCTGCCACCGGTCTCATCCGGGCACTGTGCTGGTTTCGTGTTTCTGTGAATGCCATCCTAGGGCATGTCAGACCTTTTCAGTCTCTTTCTGTCCTTGACAATACAGAGCTTTGATTAGGATCATTGCTGTGTGGACTGACACTTGTGGCATGCTGGTCCTGGAGGGGCTTGTGTGGTGTGTGTACACTGAGAACACCGAAGGAAGGAGATGGTGGTGGACGGAAGGAGCAAGGATCGGGGGTGGGGGGGAGAGCTATCAGCTGGAGAAGGGTTGGTTCTCCGAGTGCAGCATTCCTTATCCCAGCAATACCTCCATCCTCAGGACTATGTTGTAGCTCCATAGGGAGAGCGGTCAGAATGCTTGCCTAGCATGCATGAAGTCCTGGGCTCGATCCCCAGCAGAGCATGAACTAGATATGGTGACACACACCTGTAACCCCTGGTGTAGGAAGTAAGGATAGAAGGATCAGGAGTTCAAAGTCATCCTCAGACACATGTCAAGTTCAAAGCCAGCCCGGCTACATGAGACCCTGTCTCAAAAATAGATAGGTAGGTAGGTAGGTAGGTAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGGCGGGTCAGTGGATGGTTAAGCGGGCAAAGATTGCAGCTGCCAACCAACATTTACAACCTGCGTTCAATCCCTGAGACACACATGGCGGGAGACAGCTGACACCTGCTGGTCGACCTCTGACCTCTGCATGTGCACACACCCACAAGAATGAATGGATAAATGAGTGAATGCAATTTTAAAATTAAAGAGCGAAAACACAGGAACAAGACTTCCACTCGTCCTGAGTCCTCCCCAGCCTGAGCCCCTCCCGGGTGCCTGACGCATGTCTCCTGGTTGCACGCAG
Seq C2 exon
ACCACTCCGTCAGAGGAGCCCGGTGGGCCCCAGATGCTGACACCTCAGGCTCCGTGTGCAGATGGTTTTGAGGAGCCCGGAGCACGGCAACGGGCACTCAGCGCTGTCAGTGTCCTCACCAGTGCCCTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015049:ENSRNOT00000064555:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.827 A=NA C2=0.533
Domain overlap (PFAM):
C1:
PF119333=DUF3451=FE(59.1=100)
A:
NA
C2:
PF119333=DUF3451=PD(17.8=82.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
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]