RnoINT0131649 @ rn6
Intron Retention
Gene
ENSRNOG00000015049 | Scn5a
Description
sodium voltage-gated channel alpha subunit 5 [Source:RGD Symbol;Acc:3637]
Coordinates
chr8:128246199-128249548:-
Coord C1 exon
chr8:128249219-128249548
Coord A exon
chr8:128246318-128249218
Coord C2 exon
chr8:128246199-128246317
Length
2901 bp
Sequences
Splice sites
5' ss Seq
AAGGTGACT
5' ss Score
6.64
3' ss Seq
ACAGTTCCCTCTGTCCACAGACC
3' ss Score
11.57
Exon sequences
Seq C1 exon
CTTCCTTCCAGGCAACCTGAGGAGAGCCTGTGCCCCCAGAAGCAGGATGAGAAGATGGCAAACCTCCTGTTACCTCGGGGCACCAGCAGCTTCCGTAGGTTCACCCGGGAGTCACTGGCGGCCATCGAGAAGCGAATGGCTGAAAAGCAAGCCCGAGGAGGTTCGGCCACCTCACAGGAGAGCCGTGAGGGCCTGCAGGAGGAGGAGGCTCCCCGGCCCCAGCTGGACCTACAGGCCTCCAAAAAGCTGCCAGATCTCTATGGCAACCCACCCCGAGAGCTCATCGGGGAGCCCCTGGAAGACCTGGACCCTTTCTATAGTACCCAGAAG
Seq A exon
GTGACTGCCACCCCCTCAGCACCCTCCCCACCCTTTAGGTAGCTCCTAGGAAGGCAGCAGACAGATGGAGCTTTGCTCTTGTGGAGTTCTGTGTGGGGCCGGCTCCCCTGGGCCTTGGGGGAGTGATTCACCATTAATCTGTATTCCAGTCACCTTAATTTTGGAGTTCTGGGGTAAAGACATAAATCATGCTGTTTGGGCCCCCAACTTGGGGGCAGGAGGACCACTGATACGTTGTCTTCTTTTGTGGTTCTTCCGTGTATACCTCCAGGGGATTCCTTTCTGTCCCCAGACGCGTGGGCGCTTGGAATGAAGCCCTGAGTGGTCCCCCTCCTACCCAAAGGCAGCATGCGCTCCTCCTGTCTCTCTGGCAGCTGAGAGAATTAGCCAGGCATCATCCTCCGAGGCAGCTGGCTCAAGATGAGCTGCAGTAGTAGTCTCCTGGGCCTTACGGCCTTCCCTCAACCACAGAGGTCATGGAGAGGCTGAGGGGGTGAAGAGGCCGTGACTGCAAAGGCATGGAGTGTAGGGAAGACACAGGTCTCCTACAGAGGGGCAGGCTGTCCACACTTCTGCGCCTGATTGTGGGGGTGGGGCAGGACAGGCTGGGATCTGAGGGAAGGCCTTTCCAGGGAGGCTGGGCACGAGAGAGAGACAAGGGTAGTCACTGGAGTCCCTGTGGCCAGCTCCATGCTGAGGGCAGAGCATCAGTGGGACTGGAGAGATAAGTACAGTCAGCACAGGGACCTGTGCAGCATGCGTCTGTCAGTGTGTCTGTCAGTATGGGGACCTGTGCAGCATGTGTCTGTCAGTATGTCAGTTTGTCTGTCAGTGTGAAACATGTGTCCTTCAGTGCATCTGTGTGTCTGTCAGAGTGTCTGCCAGGGTGGGGGTCTGTGTAACGTGTCTGTCAGTGTGTCTGTCAGCGTGTCTGTCAGCATGTCTGTGTGTCTGTCAGTGTGTCAGTATGGGGACCTATGAAGCATGTGTCTGTCAGTGTGTCTGTGTGTCTGCTAGTGTGTCTGTCAGTGTGGAGATCTGTGTAATGTGTCTGTCAGTGTTGGGACCTGTGTAGCATGTATCTTTCAGTGTATCTGTCAGTGTGGGGACCTGTGTAGCGTGTGTCTGTGTTTCTGTCAGTGTGTTTGCCACGATGGTTGGAGACAATGTTTAGGAGACTAAGAGCCTGAGTGTGCATGTCTGTGTGCATGTGTTTATGTATAGCTGCATGTGTGATCAGCTATGGGTGTGAAGGGACACACACACACACACACACACACACACACATTCCATATACACAGACAGCAGGAGAGCTGACCTGAGCCCGGAGGGACACACACATATCCCCCCTCCCTCTGTGTGTGTGTTTGTGTGTCTGTGTGTCTGTCTGTCTGTCTCCCTCCCTCTCTCAATCCTTCTCTCTCTTCTCTCTCTCTCTCCCTCCTTCCCTCCCTCCCTCCCTCGCTTTGTCCCTCCCTCTCTCCCTCCCTACACACATACTCTCTCTCTCTCTCTCTCACACACACACACACACACACACACACACACACACACACATACACACACATCTTTTTCTCTTTCTCCATTTACATACACAGGAGAGCTGACCTGGGCCCTGAGGGACAGATGGACCCCCCCCCAACACACACATAAACACACAGACACACTCCATCTACACAGACACACACACACACACACACACACACACACACACACTCCATCTACACAGACAGATAACAGGAGAGCGGACCTGGGTCTGGCTCCTAGTCTGAGGCTTCAGAACTTCTCCCTGGATCAGGTGACTGGAGAAGGGTCAGAGTGGGATGTGAGTCTGAGTTGTAGGTGAGTGTGTGGATAGGCTTAGGTCATGCTTGCTCTGGAGCTGACAGAATTGAGATTAGGGTTAGGGACATGGCTGGGGGTGGTGAGTCTAGGTCATGGAGGGGAACAGAAATGACTCGGCAGGACTCAGATGAGACCAGTTGTGCGCATAGCAGGTGGACCTGAGGGTGGAGTCCAGGCTGGGTGAGCTTAGAGGCCTTGCCCCCAGGCCAGCACAGGTCATTTGGGCGGAATGAGGACACCATCTCTTGTCTCTATATATCCGGGGTGCCCTGTTCCATCCAGTTTCCCTTGCTGTCCCTGGCTACACTGCCTGAGGCTACACCGCTGGCACCCCATGGAACTTCTAGTTCTGATCTGTCTGCTCACCGTGCCCCGCCAGCCAAGATTAAATAGGACTTTGTCTCAAACACTCAACCGGTGAAGATGAGTGGTCTCAGAGCCTGTGGTGGCCATGACTCTGCAGCCTCGAGATCTCACAGCTCCCCTGCCCCGTCACACCAGATGGACATAGCTGCTAGAAATGACCGGGGGTCTTCAAAGCCCAGGCCACGGGTGCGATTCAGAGGCTGATCTTTGACCTTAGGCAGGCAAGGTCCCAGGGAAGGCCATGGATGGTTCTTTAGCTTTCTTTCCTCCCTCACCCATAAGTCTCTGCTGACCCAGCTGTGAGCAGGACTCTCTTACAGGTCTATGCAAGGTAGGAGAAGGGGAGAGAGGAGGCCTCCCTGGGTCTTACAGACTTCTGCAGAAGCAGCTGGCACGGAACTGGGGCGTCGTCTTGACTCAGCCTCCCAGGGGCTGGTATTACAGGCACGTGCCGCCATGCCCAGCCGAAAGGGTCCTTGCTGAGAGGGTGATTCTGAAACTAGACTAAATATAAACCAACCTGACATCACCCAAACTCCACCTCCCTGCCCTTCACTCGTGGCCCAGGCACGGGGTGTCCACAGTGAAGGGAGGTCCCTCTTCCTTCACTCCCTCCTCACCCTGTAGCCATGGCCTGGGGGCTCTAAGATGAGCGCTGTCTCCGGACCTAACAGTTCCCTCTGTCCACAG
Seq C2 exon
ACCTTCATCGTGCTGAATAAGGGCAAAACCATCTTCCGGTTCAGTGCCACCAATGCCTTGTATGTCCTCAGCCCCTTCCACCCCGTGCGCCGAGCGGCCGTGAAGATCCTGGTACACTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015049:ENSRNOT00000064555:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.380 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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]