RnoINT0131658 @ rn6
Intron Retention
Gene
ENSRNOG00000015049 | Scn5a
Description
sodium voltage-gated channel alpha subunit 5 [Source:RGD Symbol;Acc:3637]
Coordinates
chr8:128236823-128246317:-
Coord C1 exon
chr8:128246199-128246317
Coord A exon
chr8:128236913-128246198
Coord C2 exon
chr8:128236823-128236912
Length
9286 bp
Sequences
Splice sites
5' ss Seq
CTCATATCC
5' ss Score
-13.36
3' ss Seq
TTCCTTAACTCCGGCATCACGCT
3' ss Score
-5.85
Exon sequences
Seq C1 exon
ACCTTCATCGTGCTGAATAAGGGCAAAACCATCTTCCGGTTCAGTGCCACCAATGCCTTGTATGTCCTCAGCCCCTTCCACCCCGTGCGCCGAGCGGCCGTGAAGATCCTGGTACACTC
Seq A exon
ATATCCTTTGCTCTTAATCCGCATCTGTCCTGGGGTACACACGGGTGCTGCGCTCAGGCCAGGGCGATGCGGGGTCCCCTCAACTGCCCCTGGGACAAGCGGCATAGTGAGAAATCACCAGCGGAGATCAGAAAAACAGAACCCCGACCTCCACCCTAGATACGCTGAGTTAGCACCTGCATTTTAACAACATCCCTAAGGGTTCTTGGGGTGTAGGGGAGCTTGAGAAGCCCTCATGTCTCCTCTGCATCTTTAGGAGAAAAAATAGCCTTGAAGCCAAGGAGCTGGGGTTCAGAAGAAACGGTTTCCCCAGCATTCCCCTGTCTCTGGTGGCTCCAAATGTCCCCACCCACCACCACCCCTGAGCCCTTACCTCCTGCTGCCCCTTGCAAAGACTCTGCCAAGGAAAAGCCATTTCTTGTGGGTTTTTTTTTTTTAAGGTCTCTAGTTTTTTTCTCATGTGGGCATCTTTCGAAGGAGGCAGCGCTTGCTTCTGAACTAGGTGTTGACAAATGTTTGCAGTTTGAGAGCTTCTCAAAGAACTCTGGTTAGCGTCCAATTACATAAACCTCGTCCTAAAAATGATTCCCGCCTGCTGACAGAGTTGTTGGAATGGAGCAGCGGGACCAACAGCGCTGAGCCGGCATCGAGGTCCTAGTTCAGCCAGCACCTGAAGAGGGCACCGCCTTCTCTGGGTCTCACTTCTTAGATATATTATGTGCGTGTTGTGCCTTCTCCGTGCATGGGGAGCGTGGGGGTCAGAGGGCAGGCTGCAGGACCCCATTGGTCTCCTTTTGCCTTGTGGGTTCCAGGGTGGTCTGGCTTGACAGCAAGTCCCTTTACCACTGAGCTGACTCACTGGCCCAGTCACCTCTGGATATCAGAGAAGGGGCCAGAAGATGGAGTCACACAGAGAGGGGTGGTGCAGTCCACTAAGGCAGAGGTATCTTACTGTGAGGATCTGGAAAACCCCTTTCATGGCCACTGGTGACCTGGATGAGGGCATGCTTATAGGACATGCCCCCTGTTCTTTGGTTAGTTGATTTGGTCTTTCTGTTGTTTTTAATTTTGTATTATTTTATGTCCTTATTTATTTGTGTATCCGTTTATTTATTTGTATTGTTGGGGGGAGTATATACAGATCATGATGTGTATGTGGAGGTCAGGAGGCAGAAGTCCTTTCCTTCATGAGGATCAGGGGATCGAACTCAGGCCATCAGATTTGGCAGCAAGCCCCCTAACCCACTGAGCCAACCCCAAAGGCCAGAAGTGCCATCGTGAATCTCTGTCATGTTGCTGAGCTTCGCTCAATGCTTGATACTAGCTGTGGGTATAGCAGACAGGCTGGACGGAGCTCCAGAAGTCCTTCCTGACCACCTCCACCCCTACTCTGAATGGGCATTACCCCCTTAGAGAGCCCCCTTAGAGTGATAAATCAGCTACTGAGTTGCCATTCCCTCCAGAGCGTGGTCACAGCTTTGTAGGAAGAGCAGAGCTGAAGCAAGAGGGAAACGGTTTCCTTAGTGCTCTGAGCCCGTCTCCAGCCTGCCGCAGGGGTGTGGCCACCCTGAAAGCATCTTCCACCCTCATTCAGGGCTGCTTCTCCAGGTATCTAACCAACCCAGTGCTGTTTGGCAGCCATGAAAATCTCCAGAGATACAGCCCGGGTCCCTTGACTCTCCCCAGGCCCTAGCTGTGACTTGCTAGGCAGATGAGAGGCTGGGAAGCATGTGGATGAGGAAGACAGTGGGACACTGGAGGTCCTCAGCCCAGACAGAAGTGCCCTGAGGGGGAGCTCTGAGGCTGTGAGTTTCTGGCCATCTGGTAAGACCAGCCTTGAGGGTCCTGAGCTGCCTGCCTGCCTCCCCCAGGGCAGCCACCCCAGGGAAGTGATCAGGTCTGTGAGGCCCTAGGCTCTGTGGCTGCCACAGCACTGCTCTACCTGGGGATGGGCCGACAGCCCCCCCCGACAGCGCCACCTAGTGGAAGGAGGGGCTGAGATTGTGGGCTTTGCAAGCTCAGCTCCCAGTTCCCCCAGCCCCCTCCGTGTGGTGGAGCACCCAGCAGGCGTCCCAGCACCACTAGGATTTTGTAGAAACTGCAGAACCCTAGGTGCTACCTGGAAACCCGCATTTAGTTGTTCCACCTGTGAGGATGTGGGGGTCACCTCTGTGCCACGCAGGACGTTTGTTTAAAAGGAAGATGCTTAGGGCTTTCTAGAGCAGAGTCACCAGCTGAAGACTCAGGGAACCGCAAGTGTCCACTGACTCCTGGAAGGCTGTTATCTGCCTTGCATGCCTAAGACATTGCGCCTTTGTTTTTATTATTTTTTAAATTCTTTGTTTCTATCTCCATCTCTCAGTTCTTCACTCTCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATGTGGTATGTTGTAAGTATGTGTGTGTGACTGTGTGAGTCTATGTGTGAGTGTTTATGTGTATCGTGAATATGTATGTGAGTGTGTATGGGTTTGTGTGTATGTTGTATGTGTGTGGGAGTGTGACTGTGTGTGAACGTATGTATGTGAGTGTGTGTGTGTATGTGTGTGAAAGTGTGATTGTGTGTGTATGAGTGTGTATGTATGCGTGTGACGTGAGTGCACTGTGTGAGTGCGCGTATGTATGTATGAGTATGTTGTGAATATGTGTGTGAATGTGTGGTTGTATGTATGAGTGAGTATGTGTATATGTGTGTATGTGATTGTGTGTATGAGTGTGTGTGTATGAGTTTGTTTATGTATTGTGTGTGTGTGTGAGTGTGTTGTGAGTATATCTGTGTGAGAGAGTGTATGTGAGAGAATGTGTGTGTGTGTCTGTTATATAGGGGTAAGTGCTTGTGGATGTCAGATCCTCGTGGAGCTGCAATGACAGATGGTTGTGTGCTCCCCAACGTGACCACTGTAAAGTGAACACAGGATCTCTGAAAGGACACTATTCACTCTTAATTGCTGAGCCATCTCTCCAACCCATAAAACTTGTTTTCAAGTATGTGATTCGGTGATTTTTTAAATGTGTTTCTAAGGCTGCACAATCATTACTGCTACGTAGTTCTAGGAGATTCCATCAGCCTCCCAAATTGGGCTGAGCCTGTGCCCGTTAGCACCACAGTAGTTCTTTTTGAGACAGGGACTCATTAGGTAGACCAGGCTGGCCTCGACTTCACAGACACCCACCTGCCTTCCAGCAGCTAGGATGACAGGTGCGAGTGCCACGCCCTACAACGCAAAGCCTCTCTGCTAGGTTTTTAGCTTTTTGTTGAGGGTTTTGCTCTCTATCCCACGTTGATCCAGAACTCAGAGCATCCTCCAGCCTCCACATCAGGAGTACCAAGAGGTTGTGAGTTAATGTGCCTGTCTCAGCGTGAAGTCTGGACTCCTGTTTTCAATGGTAAAATTTCACTGCGTTTAAATGTTCACATCCACTCAAATGCCCACTAAGTCTCTACCTGTGCAGAGTTAGGTATGTGATAGGAAACTTTAAAAGGAGCAAGAACACATCCTGGCCTCCTGTGACAATTTAGGCTCCTGGTGTGACATACAAGTGCCACCGTTGTTTGGCTCTAGTCTTTGTCCTGAGCTGCGGTGTGTCTCTGGGAAACGGCTGGAAAAGTAAATATGGCATGTAGAATTGATTTGTTCCTATGTATTTTTGTCATAATTCTGCAGAATGTGTTCCTGCCACGATTAAATAAAAAGAAACTAACGGAACTCAGAATTCCCGTGCAGTCACATTCAGAGACCTAGTGTTCATGCCAAGAATCAGTTTGTCTTCTTCGGTGCCCAGGAGCTGCTCACAAAACCCTCCCACATTTCTCTCCTGGATTCAGATGGGCAATCAAATTGTGTGCGTGCTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTCACTGAACAACAGAAACCATGACAGTACCACCCATGGCTAATTCCCTTCTCTTTGGGAGACTTAGTAACCCAAGGGTCGGGCAGTCTCCGTGGTTGCACAGGCAGTCTCCGTGGTTGCACACAACAGTCTGTGTGGTTGCACACAACAGTCTCTGTGGTTGTACAGGCAGTCTCTGTGGTTGCACAGGCAGTCTCTGTGGTTGCACACAACAGTCTGTGTGGTTGCACAGGCTGTCTTTGTGGTTGCACACAACAGTCTCTGTGGTTGTACAGGCAGTCTCTGTGGTTGCACAGGCAGTCTCCGTGGTTGCACACAACAGTCTGTGTGGTTGCACACAACAGTCTCTGTGGTTGTACAGGCAGTCTCTGCGGTTGCACAGGCAGTCTCTGTGGTTGCACACAACAGTCTGTGTGGTTGCACAGGCTGTCTCTGTGGTTGCACAGGCTGTCTCTGTGGTTGCACAGGCAGTCTCTGTGGTTGCACAGGCAGTCTCTGTGGTTGCACACAACAGTCTGTGTGGTTGCACAGGCTGTCTCTGTGGTTGCACACAACAGTCTCTGTGGTTGCACAGGCAGTCTCTGTGGTTGCACACAACAGTCTCTGTGGTTGCACAGGCAGTCTCCATGGTTACACACAACAGTCTCTGTGGTTGCACAAGCAGTCTCCATGGTTACACAGGCAGTTTCTGTGGTTGCACATGCCGTCTCTGGTGGCATTTTAATTGTGAGACTGGGAGTGGGTGTTGGGACAATGACATGAAAGGGTTGAAGATGTTCTCCTGTGCACAGGGCTATAGAGCTGGCCTTTTTGCTTCTGCCCACACAAAGGACCAGCTTGATGTTGGTCCGAAACTAGCAAGCAGCACAAACAGGTGTCTCCTGGCTGGGAGTTCAGGTGACCCCTAAGTCTGGTATTGGCTCATGCTGACTTCCTTGGGGTCTTGGAGTATTTAGGGAGGGACCTGAAGACCAGAGGCTTGGATGAGGTCATCATACACAAAAGACTAGCGTCAGAGCAATCCCTAAAGCCAAGGCACCCAGGCGCTTCTGAGGTGCCAGATGGAAGGACATGAGCCTGGTTCACCCCAGCTCATCTCCAGACCTAGGGACCTAGACATTGTCCCACAACTTCTATCACCTTAGTGTTCAGGTCTGTGTTCATCTCTCTAGCTACATCCTTGAGCGTGTCCACAGCAGCCTGCCTGCCCAGCCACTCTCTGGAGAGGAGCCTGTTTCTTATTCTGAGGAGTTTGGCAGTGGCCCACCCAGAGTACATAGAAAGGTGTGTTACCGGGACTGTCTGGGCTGACTGGTTGCTGGAACAGCCATGAGTGGCCTTACATGCCTCCTCAGGGAAGCCCTCCTTCTCAGCCCCACCAAAGACGTAATGTCCCATTTAGTTGTGTGTCAAGGACAGGGCTCTGCTGTCATGCATCCATGCCCTGGTGACATTTGCTCTTTAAAAGACACATAAAGGCTGCAGAGGTGGCTCAACCAGTAAAGTACATGCCGTGTGAGCATGGGGACCAGAGCTTATCTCCAGAACCCATGTAAATAGGCCACGTGTGGCGGCTTACTACTGCAGTCTGAGCACCTGGGAGGGGATCCCTGGAACTCTCTGGTCAGTCAGCCTAACTCATTGGCAAGCTCCAGGCCAGTGGGATTCTTTCGAGAAATGACAGCCAAAGTTGTCTCCTGGTCCACATGCATCATGCATACTTGGACATGCATACCTTCACACAAATATGCATACACAGGATGACACCATTTCCTTGCCCTTCCTGTGCGGCACTCTCCTGGAACTTAACAGAGCCCGCCTGGTTTGATTTTTCATCCAGTACCATGGGTGGTAAGGTGCTTGTTGTCAAGGGAGGGTCAGGATGCTGTAACCAACATGAAGTCCTCCATTCCAGAGGCAGGAGAGTGGACCAGAGTGCAGCTGAGTTCCTCCTGCAGAGAGACTGCCACAGAGGGGCTCCTGAACCTGGGAGGGGTACACATGGGGCCCAGGCCAGCCCCATCCTCCATCAATGTTGTCCCTTGGGTAACTCCTGGTGCCACCGAGATTTGTGGCCACAGGCATGCTAGCTCGGAGGAGTGCGTATCATTTTATGGCTCGGGAGGCTCCCGCTGGGCAGAAATCAAGGTATCTGCAGGGGTTTGCTCCTTTCTGGAGGCTCCAGGGGTGTTTCTAGGTTTTTCCCTCTCTCTGCAGTACTGTCTCACACTCCTGAGCTCATGTGCTGCCTGTCAGCGAGCAGTGGCCAGTCAGGGGCCACAGACCCTCCCGCCTGTCACTGGATAATGCAGGGAACCGGTGCTTACCACCTCAAGTATTTAAGCGGATCACATCTGCAATGCTGTATCACGTTTGCCAATCAAATGCACAGCTGGCTGCCCAGGGCTTCCGCTGTCGGCTTCTTTGGGGCAGTACCCTGCCCGCTGCAGTGACCTTCAACTTGACTGACTTGCGCATCTGTTTTCTTATCTCTTCAGACGGAGGCAAGCCTCTCACCTTAGGGTTGTTAAGAGAGTCAGGTTTGTCCAAGCACAGAACCCGGCCCCTAGGAGGGGCTCGGCGGATACCTGCTATGGGCACCGTCCCGTACATATTTCAAAACTGTTGTGAGATCTTCTACAGTTGGGCAGTGGATCCATGCAAGTGGAGGAAGCCGGCTGAGGGGCTGGTAACCGGTTCACCCAGTGAGAGAAGTTTCATCCCACCGCCTGGTTGCGGAGAGGCACTGGGGATAGGGATGGGATCCTTCGAAGAACGTGACCCCTGGGCGACACATAGGATGGTAGGCCGGGTGTGTGACTGTTCTAGTTTGATTTCTGTTGCTGTGATAAAATGCTGACCAAACACAGCATAGGGGAGGAAAGGGTTTCTTCCAGGCAGTACAGCCCATCACTGAGGGAAGTCAGGGCAGGAATGCAATGGCCTGGAGGATGCTGCTTGCTGGTTTGCACACAGCACACAGCCTCTCCCTTAGCTAGCTACCTTTCTTTCTTTCTTTTTTCCTTCCTTTCTTCCTTCCTCCCTTTCCTTTCTATTATTGGATTTTTTATTTACATTTTAAATTTTATCCCCTTTCCCAGTTTCCCCCTCCAGAAACCTGCTATCCCATCCCACCGCCACTCCTTCTATGAGGGTGCTCCCCTACCCACCCAGCCACTCCCTTCCACCTCCCCACCCTGGCATTCCCCTACACTGGGGCATCAAGCCTTCACAGGACCAAGGGCCTCTCCTCCCGATAAGGCCATCCTCTGCTACATATGTGGCTGGAGCCACAGGTCCATCCCTGTGTACTCTTGGAATAGTAGTTTAGTCCCTGGTAGCTCTGGGGGTGGGGGTGGGGTCTGGTTGGTAAATACTGTTGTTCTTATGGGGTTGCAAACCCCTTCAGCTCCTTCAGTCCTTTCTCTATCTCCTCCATTGGGGACCCCATTCTCAGTCCAATGGTCGGCTGCATGCACCTACCTCTGTATTTGTCAGAGCCTCTCAGGAGACAGCTATATCAGGCTCCTATCAGCATGAACTTCTTGGCATCTGCAATATTGTCTGGGTTTGTTGTCTGTATATGAGATGGATCCCCCAGGTGGGGCAGTCTCTGGATGGACTTTCCTTTATATATAACCCGGGACCAGTGTCTGCCTATGGGATGGTGCTGCCCACAGTGGGCTGGGCCCTCCTACATCACTAATCCATCAAGACAGTCCTCCACAGGCATGCCCATAGGTCGGTCTGATCTTGCTAGTCCCTCAACTGAGGCTTTCCTTTCAGGACTTGGCTGTGTTAAGTTGGCAGTTAAAGCCAACCGGGACCCTGCTGCATGGCCCATGGAAGTAAGGACCCCAGGGCCTGGAGTGGTACCCTCCCTGGCTGGGCAGTCCTGTAGGCCATCCCTGAGTTGATGAAGCAGCGTGATCACCTCTTTTTTTTTTTTATGAGAAACTAGGGACTTAATTATAAATGAGGCTGCTTTTCTAATTAACTGGGTTATCTTCCTGCTTGGAGGTAGGATGGATATTTACCTGGCTAGACTCTACTCATACATATACCAGAGCAGGTACCAGTAAGTGCCAGCCAGGGGTCAGGAGAATGGAACTGTATAAGGAGGAGAAAGGAGGTCTTGAGAGCTCGGACTGCCCTTGGGAGTCACCTTTGGCAGCCACATGCTCAGGGCTGAGGCTGGGCTGTGGTGTCCCCCAGCCTGGAGGCAGCCACAGGGAGTGGTCAATACAGCCTCTCTCTGGGGCAGGGAGGGAGATCTGTGAATGCAGCCTGGAGCACCCCATCCTCTAGGAGGCCCAGGTCTGACTCTTCCTCCTTTATCTTACGAAGCCAAGCAAAGAGTGAAGGGAGTCAGTCAGAGCTTTGTCCAGTCTGAAGCAACAGCTAAGACGCGGCCAGACCCTGGGACGGTAGTTTAGCTAACACCTGAGATCCCACAGAGATACCCAGAGCACAGTGTTTGCAGAGTCCCTTTCCAGCAAGCAGACAGATGGGTTGACATTCATCAGGAGCCACAGGGTGAAAGGGGGATGTCTGTGCCTCTCAGGGTGTGAAGCAGCAACAGCCATCGAGCTGAGGTGGTCTAGGGGGAGGGGAGCTTCCTGAGGAGGGGGTTTTTGAAGCGCACAGAGCACCAGGCAAGGGACTATGGTAGAGGCAGATGTAGAGGCCAGAAGCACACCGGAAGTGCCCCCTCCAACCTGGCAGCTCACGTCCAGGTGCGTTTGAAACTAAAGTCTGGGAGAACTTGGGCCCCTGTCTTTCTTCCTGGCCTTCTCCAAACTGGAGCCATTTGAAGAGCTTGACCCCCTCCCATGTGACTGCGGGCAAGAGTCAACCCTAAGGTGTGGGGTGTCTCTTCACTCCACCCTGGGTCCCCCAGAGTGCCCTGCGGAAGATGTGGTTTCTGGTTTGTCTGGTGCTTGCTAAGCTATGGAACAGGCCCGGTTCTGGCAACAAGTGCCTGGGTGGCACAGAGAGCAGACCGCTCGGGCTCACAGCACCGGGGATGTCCTCACTGATCTGGCAACACTTACCTGGCAGTGGCATCAGGCCTGGCCCCTCGGCAGGCAGATACGGTGGCTTAGCTGACCTTCTCCCGTGGATTTGCACATCTTTTTTGGCTTCTCTGTGGATTTGTGGAGAGGACCTTCGGGGCTTTCCGCAGTCGCTTCCGTGGCTTTCTGAGCGGGGAGGGGCTTCTGTGGCTTTATGGGTAGAGTTTTCTCGTGATTTCTTGTGGCTCCTCCCGTAGCTTTCCGAGGGATTTGTGGGTAGGCCCCTCCCACCGCTGCCTCTGTGGATCCTCTAAGTGGGTTTGTCGCCAGCCCCTCCCACAGCTTCCTTAACTCCGGCATCAC
Seq C2 exon
GCTCTTTAGCATGCTCATCATGTGCACCATCCTGACCAACTGCGTGTTCATGGCCCAGCACGACCCTCCGCCTTGGACCAAATATGTTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015049:ENSRNOT00000064555:3
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0052026=Ion_trans=PU(0.8=6.5)
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]