RnoINT0131661 @ rn6
Intron Retention
Gene
ENSRNOG00000015049 | Scn5a
Description
sodium voltage-gated channel alpha subunit 5 [Source:RGD Symbol;Acc:3637]
Coordinates
chr8:128225184-128228860:-
Coord C1 exon
chr8:128228769-128228860
Coord A exon
chr8:128225415-128228768
Coord C2 exon
chr8:128225184-128225414
Length
3354 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAAA
5' ss Score
5.07
3' ss Seq
GCTCCGTCTCGCTTCGCCAGGCC
3' ss Score
7.64
Exon sequences
Seq C1 exon
ATACACAACTGAATTTGTGGACCTGGGCAATGTCTCAGCCTTACGCACCTTCCGAGTCCTCCGGGCCCTGAAAACTATATCGGTCATTTCAG
Seq A exon
GTGAAAAAGTGAAAAAAGAAATCAGGTTAAACGCCAAGGCTGGAGGGACACGCCTGGGCCTTTCCAGCGGCCTGGGAGCCGAGGCTGTCTCCCAGAAGGCCCTTTAGATGTGCCTGTCACCAGAATACCTTTGTCAGAGGTGGGGGGCAGTGGAAGGATCTTTCTCCCTGGGACCTCAGAGTGGGCTCTGGGCTGTCTGCCCCAGCCAAGCCCACTCTCAGACACCAGGAGTTCAAAACAACCCACGGGCAAGATGGAACCGGTCCCCGACGCGTCCCCCAAAACGCTCAGTTCTTTCTCCAACCTGAACTCGGCTGCGCTCCTAGTGGAAAACTGGGGCTCGAGAATCACAGGAAGTGACAAGCTCCCATCAGCAACCTAAAAAGGTGGTGCTTAAGGGAACCTGGCATACCCCTAGCGGTCTTTTCTGACAGTGCCAGAGCCCAGCCTCGTGCTCCATGAGCTGACTCCTGCGAGCCTCAGCCCCCATCCCCAGTCACAAAGCGTTCTCTGTTGACAGGCATCATCGGGCCTTGGCGTCTACCGGCCCTCTCTGCATGGCGCAGTAGAGGTTTAGTAAATCATGCATGGTAGCCTCGGGAAGAAATTCTCCTTGACAGATGTTGGCAACTGTACCCGGGAAACCTTAGCCTCAGCAGTGACCATTTCACCTGTCCACACAGGAAAGTACCCAGAAGCCCATCTGTGTGTGCAGTTTGGTGCTAAAGAGGACACCACTCGCCCTGGCCCTTCCAACCTCTCAACCCCACTCTTTATCTCACCCTCCCCAGGTTAGCATGAGCTCAGACTACCCCTATTTTACGGACTTGTTCTGGAGGAGCAGGGACCAGACCCCAGGAGGCCCCTGTGAGTACACAGTCCTCAGAATGAGCAAGTTAAGAAGGCTAGAGGGCTGGGGGCAGGGTGTGGCTCAGTGGGGAGTTGCTTCTATCTCAACCTTGAGGACCTGACTTTAGATCCCGAGGCCAGCTTTAAAAAGCTGGTCATGTGTCACGTGACTGTGATCTCAGGCTGTGGGGGCAGAGATAGGAGGATCTTGGAGACTCCCTAGCTAGCCAGTCTTGCAGAAAATGGTGAACTTCAGGTTCCTGTGAGGCGCTGTCTCAGAACATAAGCTGTAGAGCGAGAGAGGAAGACACCAGACTGCCTTAGATATGGAGGTGCCTCGGTGCTGAAGACCTCCCTGGACCAGTGATAGCCTCTACTCCTAGAGGAAAATTCTGGTGACTTCCAGGCCTCTTGCCACCCTCGAGGCATCAGAGACCCCTGGCCACAGGTTAATTTTATAAACATTACTCCTGACCATTTTCCATTTAGACTAAATATCTAAATGTCTCTCCTCACCTCGGAACCCGCTTAGTATGTCCACAGCAAGGCCATGTCTACCCAGTGTGCCACACTTGTGTCCCAAATTCCTGCCATGGCTGGGGCAACCTCTCAGTAACCCCCCATGAAGCAGATGTCACCAGCTGAGGTAGCCTGCAATTTCCACTGCCTGGGAGGCCGACAGGAAACAGAGCTCGCCTAAACTACCAAATGGTTCAAAGGCCAGACAAGAACCTTGTCTCAAATTTTTTAAATGCATAAAAGAACTGAGTGTAGATAAGTATAAAAGGTTTGCTTAGGGGGTCCAAGACCCCTGAGTCTGATTCCCTAGTATTAAGAAGACACGAGGTAAAGGGACATTAACAAGCCCTTTGAGGTCACCAGCGGCTAAGAGAGGCCACAGAAAGTGGCCCCTGGGGTAGCTGTAGAAAGTGTTGTTTGCAGCTGAGGGAGTGCTGCCTACAGGAGCCCCCAGAGGGGGCAGACTCCAAACACCTGCAGCTTGTCTGAAACCTTTCTTGACATAAGTGAACTCTCTCTTTGTTATGAGGGAAGGTTTTAAGAGGCGGGTGACCTTTGCAGCTATCTCCGCAGGCCCAAGCAGGATTGCTCTGCCAGCCCTGAATAGAGTATTTGGGGGCAAAGATTCTTAAGCCTGTTTGTTGGGGTACAGTCCAAAGTGGGCATCCGAGCTCCAGCCGTATCCCTGTCATGTGCCCCTGAAATACATCCGTCTCCAAGCTAGAGGCCCAGCCACACACGTGTGTCCCTCAATAGGTGCTCAGAGCTCTGAACCGTACCGGACACGTGGCTCCCTACCCGATTCCCACCCACTGGGCAGTTGCCAGCATGTGCCAGGATGATTTCCATGGAGTCCCAAGTGCCAGAGCCCTTGGCAGGCAGCCGTGATGGTCTCACCGTGAGGGGGCCGTCCGCATCTCTCTCGCCTGTCCGTCACTGCTTCTCTGACTCTGGGCCGAGGGCACAATAGTCACGGGTGCTCCTAACACATTACTGGGCTGGACAGTGGAGGATGGAGCTTAACCTGAGGTCTGGCCGCTTTGGGGATGGGGCTGGGGCCCAGCTGCTGACAGTGGAGCTCCTTGCCTCTGATGCTCTGCTCGCACTTGCCCTAGGACAGTAGCTGAGGGTCCGACGGGATGTGTGCACACATGCTTCTCTGTCACTCCGCTGTAGGGTGCTGGCTTCTGCAGGGAGTTGAACTGTGCAGCTAACAGATCACAGCCACTCCGCTTTGGGGAAATGGGAGGGGCGGGGAGGGCTCCAGGGGTCAGCAGATGAGAAAGCGGGGGTGTAGCTCACCCTAGTCCCTGCCCCGTAACCTTCCCCAGATATGGCTCTACACTCTTGGGACATCACCCAACCCTGACAAACCTCCCCCAGAGTCCCACAGCTTCCTTTTATGCTAACCGGCACAAGACCCAAGCACAGACCCTGGCTTCCTTGGTTTTGTTCGAATGATTGAAACCCACTGTGTCTCCAAGACAGCTGGCCCCAGCAGTAGGGCAGCAGGAAGAACCCCCTGCCAGGAGCAGCTGTGTCTCTCCCATTTCCAGATCAAACTGAGGCCCCTTGCATTGACTTAGTAGTGGGTCTGGACCTTAGCTTCCTCTGCCCTACCATGGCCTGATAAAAAGGCCAGACTGGTAATGTAGTGGCCACGGTGGTAAGAAGACATTTTCCATCCACTCTATCCGTGTATTCCTATGCTAGGCTGATAGAGAATAAAGAGTTCTCATCTCCTGTGAAAACACGAAGCTGGGCTGGGCTCTTTGCCCTTGGCAGTCAGGAGAGACTCCGCTGGTCTTAAAGGCCCAGGAAGCCGCCTTCACTATACCCCTTCATTGTGGTTACAGTCCCTAGCCACAGCTCATTCAGTGCAGGACTTGGGGAGGCCCAGTGCCCTTCTGCAGGCCCAGGCGCCATCCACAAGATCATAGAGCGGACTATCTGTGGGTCACCCCATGCTCCGTCTCGCTTCGCCAG
Seq C2 exon
GCCTGAAGACCATCGTGGGAGCCCTAATCCAGTCTGTGAAGAAACTGGCCGATGTGATGGTCCTCACTGTCTTCTGCCTCAGTGTCTTTGCCCTCATTGGCCTGCAGCTCTTCATGGGCAACCTGAGGCACAAGTGTGTGCGTAACTTCACCGAGCTCAATGGCACCAATGGTTCCGTGGAGGCCGACGGCCTAGTCTGGAACTCCCTGGACGTCTACCTCAATGACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015049:ENSRNOT00000064555:6
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:
PF0052026=Ion_trans=FE(12.2=100)
A:
NA
C2:
PF0052026=Ion_trans=FE(30.3=100)
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]