RnoINT0131489 @ rn6
Intron Retention
Gene
ENSRNOG00000032473 | Scn10a
Description
sodium voltage-gated channel alpha subunit 10 [Source:RGD Symbol;Acc:3629]
Coordinates
chr8:128303025-128307775:-
Coord C1 exon
chr8:128307671-128307775
Coord A exon
chr8:128303296-128307670
Coord C2 exon
chr8:128303025-128303295
Length
4375 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
TGCTTCCTCCTCTCTCTCAGAAT
3' ss Score
9.63
Exon sequences
Seq C1 exon
CTAGGAGGCCAGGACATCTTCATGACAGAAGAGCAGAAGAAGTACTACAATGCCATGAAGAAGCTGGGCTCCAAGAAACCCCAGAAGCCCATCCCACGGCCCCTG
Seq A exon
GTGAGCCCCTGAGTTTCTCTTTCCCTGAGCAGGTTTGTGAATGGATTCAGCCCAAGTCTGGGCTGAATGGAAGCCTGGGTAGCGTTGTATGGGGGAGACCTGGGGCAAGTTTAGAGGTGAAGCGATGAGGCTCCCAGGCCTCAAAAGTGAGATGTGTAAATGAAGTGGAAGCAGCTCTGATGGGTGCTTCTGACAAGCTTATCTGATGGGTTCTGCATCTCTCAACAACCTGAGGCTTCAGTGGTGGCTTTGGAAACAGTATGAAACAGTAAGGGTGGTTAGAGTTTCTACCCCATGGTGTGGCCCCCATATGGGTTACTCCAGTGAGTGCAGACCGTCAGGATATTTACAGGGAGGAGGACTGTCACCTTCAACACACGTTGTGTGTCAATAATAGAATCGGTCTGTTGCTGTCTAGAGTCTGTTCAGAAGTGTTGGACCAGGAATGAATGGTGTGGGGTTTCAGACTCTAGAAGAGCAGGGGGTACCTTCCAAACCCTATAAGATGAAGAAAGCTGGGTTTGGATGAGTCTGAGCAAAAGTGTGCAGGGCTTCCTGAGGATGAACACACACACACACACACACATCACAAACACATGTACACACACATTATATCACACACACACATGAACACACACACATACACACATCATATCACAGAGATGTACACAGATGTATACACACATACATCATATCACACACACATACACACACATACACACACATCATATCATACACACATGTACACACATATACACACATCATATCACACATGTACATACACATACATCATATCACAAACATGTACACACACATGTACACACACATAGACACATCATATCACACACCTGTACACACATATACATCATATCTCACACACATGTACACACACATCATATCACACACATGTACACACATACACACACATCATATCACACACACATGTACACAGACACCCACACACATCATATCACACACATGTACACACATACACACATCATATCACACACACACATGTACACAGACACCCACACACATCATATCACACACATGTACACACATACACACACATCATATCACACACACATGTACACAGACACCCACACACATCATATCACACACATGTACACACACACACACATCACATACATATGTACACACACATCAATGGGTGAGAACTGTCTCAAAGTTAAAAGATTTGGGACGAAAGCTGAGTCCAGTCAGTGGGACTCAAGTGAGAGGTTAAGAAGGAAGCAGCTGAGCCCCGTGGCCATCACTGGCCTCACACCATCGCTGAGTTCCCGTGGAAACTGGAGTCCTGTGTCTGAGCCACTCTTTAGACCAAACAAGCTTCTGGTGCTTCTCTCTAGCCTCTCACCACTTATGAAGCAGCCCACAGGCCACTGGAGCTTCTTCCTCTCTTCTTCCTACCCCTGGGTTAAAGCGAGCTCCATTTCAAACCCTGCCCTGCAGACACTAAGTCACGGAGCTAACTGTTGAACTCCCAGGCCACACAGTCAGAGAGGGAACCGGAGATGAACATCATTGCTCCCTGCGAAGTCTCAGCCAGGATCCTCCACATCCTCCAGTGGTGGCAGAGGGCGGATGTCCCTCCGCCATAAGGGGGAAGTGGCTTCACTGCCTGGCTCTGTGCCAGAATCCTGGGACTCTCCATCTGTTTGGAGGAGGGCTTGAACTACTAATGAACTACATCGGTAATCTTAGTGGGGAGCCATGGCTCTCCTCTTACTGCGGTCCAAGGCTGGTGCACATTAGCTCTTGTATTCCCTAATCAAGAAAAGCTGAGGCAAGGTTGGGATATTTCAACAATGCTTTGAAATCTCAGGGAAGCCGTAAGAGTAGTGTCTGAGGAGAGACAGTACGTGGCTGCTCTCCAGGGCCCACAGCCCACGGTCCGTGCCAGCACTCATAACCTCATACCACCTGCCCAGCACATAAGCCTGATCCTCCCCACTGTCTAGAACCAAGAAGGAAATGCAAGGGGAGTTTTTCCTACTTTACCTAACGTTACTGGAAATTCTAGGGTACAAGCCCAGCTCTGGCAGCCCTACCAAGTGGGACTCTATCGCCCCATCCTCAAAATGCTAAGAGACAAGAAAGACCAGAAGCCAGAGAAAGATTATTCAACATGGCCGCCTGGGTAAGAGGGAGAAGTAAAGAGGTCCCGGATGCCCAAGTCCCTTTTCCGAGTCCTGATACGAGGTTTAGGCTTAAATAAAGAGTGGGAAAGATGCATAGGAGCCTCTGGTCAAGTGTGGTCCTGCCTGTCACTGGCCGTCATTAACTCACCTCCAGTTTATCCTGCAAGAAGGCCTGACCAGTGGCCAAAACTGTGTGAAAACTCTCTTCCTGGGAGACAGGCTCCACTCTGGCGGGCATCGTGTGAGAGAGACTCCTAGGGAAATTCAGTTGGTCAGGGTCTGTTGGTCAGGGTGTGTTCAGTAGCCCGACGGTCAGATGGAGGGGCACAAAGGTCTTCACTCCTGCCAGGGCAGCTGTATTAACGCACGCTCCGTCCTCCCAGGACCAGCTTGTTTCCCATCCGGCGTCTGTCTCTGGTATGCCCCACAGACATGTTTGGGAGCCAAGCCGAGCATTGGCTGGGAAGTTGTGTGTGGGCCTTGTTCATGGCAGAGCCAACACAATACCACAGAAGGATTTCCCCAACCATGCATGCACCCCCACCCCTGCCTCTGGTAAAGCTCATGTTCTAGATCTGGTCTTAACCGGTGGGAAGGCTGAAGGCTCTACAAGACTGGGTGATTTTATCCTATAGTGCTCTCTCTCATAGAAATCACTGAGAGCAGGTTTCCACATTGTGAGAAAACAGTAGACGCCTGGCTGCCATGTCATCAATATCCCTCCACTGTCTGAGGGCACGGAGGGCAATGCACACTGGGAACAGACAGAAGTTGGGATACCTACCCCAATCTGATGCTTGCATCATTTGATTAGAAGTCACGTGACCACAAATGGGACTCTCTATTTTTCTCTGGATTTTCAGTGATGACACAGAGGAGCTTAGTGGCTCCTCCCATGCCAGGACTTAAGCCAACAGTCCACACAGAGCCAGGTCCTCTCTGGTCTGATTCTCTGCTCTAACCCAGCAGGGTGGCAACCCCGCCCCCCAGTGTGAAGCATCAGTAGGGATCAGATCTACAGTAGCACTTCCCCCAACCCAGTTGAAAGCTTCTGGAAGAATCTGGCAAGTTCTTCTCCCAGACCCCTGTGACTACACACATGGGACCCTGGGCACAGTATCCCATCCAGCAAGTGCCTCTGTACAGAATTAGCTATAATCAGCACTGATCAGGTGACTGTCAAATGTTGAGATGCTTAACTCACAGATGCTCATCCGCTCTTCCACTCCCTCAATTTCTTGAGGACCACACAATGCACAGGGGACACAATGCAGACAACTAGAACTCGAACTGTAAGCAAGATGAACACAGCAACTGACCCCAGAAAGGCTGCAGTTTGGTGACAGAGGCAAATGACTAGCAAAAACCACACATACGTCAGCTCACAGGCTGCACACACAGATACCCACACATCAACTCACAGGCTACACACACACACACACACACACACACACACACACACACACACACACATCAACTCACAGGCTACACACACACACACACACATCAACTCACAGGCTACACACACACACACACACACACACACACACGTCAGCTCACAGGCTGCACACACACACCCACACATCAACTCACAGGCTACACACATCCACACACACACACACATGTCAGCTCACAGGCTGCATACACACCCACACATCAACTCACAGGCTACACACACACACACACACACACACACACACACACATGTCAGCTCACAGGCTGCACACACACACACACACACACGTCAGCTCAAAGGCTGCACACACACATACACACATCAACTCACAGGCTACACACACACACATCAACTCACAGGCTACACACACACACATCAACTCACAGGCTACACACACACACACACACACACGTCAGCTCAAAGGCTGCACACACACATACACACATCAACTCACAGGCTACACACATACACACACACACACACACACACATGTCAGCTCACAGGCTGCACACACATACACCCACACATCAACTCACAGGCTACATACACACACACACACACACACACACACACACACACACCACACACATCAGCTCACAGGCTGCACACACGCGTCGTCGTCAACTCACAGGCTGGAGAGCTTGCCACAGGGGAAAGAATGGGGTAAAATGTCTGGAGTTTGAAGGGCCTTCATGACTAGAAGTTAAGATACAGGAGACTGAAACAGCCTGGGGTGATGCTTCCTCCTCTCTCTCAG
Seq C2 exon
AATAAGTACCAAGGCTTCGTGTTTGACATCGTGACCAGGCAAGCCTTTGACATCATCATCATGGTTCTCATCTGCCTCAACATGATCACCATGATGGTGGAGACCGACGAGCAGGGCGAGGAGAAGACGAAGGTTCTGGGCAGAATCAACCAGTTCTTTGTGGCCGTCTTCACGGGCGAGTGTGTGATGAAGATGTTCGCCCTGCGACAGTACTACTTCACCAACGGCTGGAACGTGTTCGACTTCATAGTGGTGATCCTGTCCATTGGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000032473:ENSRNOT00000046864:26
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(20.3=47.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
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]