GgaINT0000878 @ galGal3
Intron Retention
Gene
ENSGALG00000006060 | SCN8A
Description
NA
Coordinates
chrE22C19W28_E50C23:83146-90379:-
Coord C1 exon
chrE22C19W28_E50C23:90050-90379
Coord A exon
chrE22C19W28_E50C23:83267-90049
Coord C2 exon
chrE22C19W28_E50C23:83146-83266
Length
6783 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
CTTTCTTTCTTTCTCTACAGACC
3' ss Score
13.53
Exon sequences
Seq C1 exon
AGCTGACCTGTCCGGGCTGCAACATCACTAAAGAAGCTGCTGCAGGATGAAAAGATGGCAGCACGGCTGCTCGCACCACCAGGCCCTGATAGTTTTAAACCTTTCACTCCGGAGTCTCTGGCTAACATTGAGAAACGCATTGCAGAAGAAAAAAAGAAGAAGCGTCCAAAGCAAGACAGCAGCCATCGCGACGACGATGAAGACAGCAAACCAAAACCAAACAGTGACCTTGAGGCGGGGAAGAATTTGCCTTTCATCTATGGGGACATCCCTAAAGGCCTGGTTGCTGTACCACTGGAGGACTTTGACCCTTATTATATGACCCAGAAA
Seq A exon
GTGAGTCTGCAAGAAAGGAGTCACTAAACCGCCTTTCTCGTAGGAGGTTGCAGGTTTGGGTATGGTTTAAATAGAAGACAAAGAATGGAGTCTTTGGATGGGGCTTTTTTGTTATTGTTATCTGTCATTTTCTTTTCTTGAACGTTAACAGTATCTCCCTTGTGCTTCATGCACCTTTGGAGCACTCACTGAGTCCAGCTAAGATAGAGATGATCTGATCAGTCTGTAAGCACCTGCTTGGATAGAGGCAGCAGAACAAGGTCTGGAAACTAAAAATAGGCAAAGTTGTGCTAATGTGCCAGTTTTAACCACGAGGGCAATGAGAAGAATATAACTGAGGGGGAATGGTAAACGTTTTAAGTGCGTATTTCTTTACCTGCATGGAAATAGTTTTCAATCATTGATCATAATGAAACTGGTATATCAAATTGTGACCAAAGGAAAAAAAAAAAGTGAGGTAATTTGTTTAAATTGCTATCATTCTCAGGATTTTATTTTTTTAATTGTCTGTGGAATTAAGGTGATATGGCAGGAGACATTTGTTGATGCTGAAATGTGTTAAGAAATGAAGCGGTGTCATTGAGGGAAGTGGTGAGTAAGCAAATGCTGCTGGAAACAAAGGGGGGAATCTTCTGGTGAAGTAAGGAAGAGTGAAGGTTGGGTGACTTAAAACTGAGCTTCTTCTCTGCTCTTTAATTGCATTGCTTTCTTTGGTAGAGATTTAGTTTGAATAAGCTGAGATAATAACGAGAAGGATAGACTGCGTGCACGATGACTGTATATGACAGCTTTGATGTGGTCGTGCAAAACTTGGGTAATATGGCTGTCATGTAAAATCAGTAAGTTGGCAAGTGTAGCAGAATACTTCATGACTTTGTGTTGGATCAGACGCTTCTTGCCGTGCTCAGAGGTGATCCTGCGACTCACAGGGCAATGTTCACATGAAGTCAACTGAATTTGGCCGCTGAAGTTTAGAATAATTAATTCTCCTCTATGTTTGCACTTCAGTGCTTGTTTGTTTTGTTAGCGGTGCTAAGAGAACAGGTACCAAAATAGGATGGCTTGTGTAAGTTGAAGATGAATTATATTGGTGTTTAGATGGATGTTTGACTTAAGGAGATGTATTGACAACTGGTGTTGTTGGCAGGAAGGAAGCTTATGCTATCCCTCCGAAATATTTTCTCTTTATTAAGCAAATATTTTCTCATTATTAAACAAATCTGTTGTTGCCTGGTTTTGATGTGGGCAGGCTGTGAAGCACACAGAGCTGAGAGCTGTTCCCAGGATCTCTGGCTGTGGCTGGCCACTTGCACCCCGCCACGTTGGGTACTGGGAAATGTCACCGCAAAGCCAACAAGGAATGGTTTGTAGATGTGCGTTGGAGGATCAGGCAGTATTCCTTCTAGCTAGAACAGGAAAACATTGCTCAATGGGTTGCAAGTAACGCCTGGAGCATTGGGCAAAGACTTGGTTGTCTTTGGTTCCACCAGAAGTAGGAGGTTGGGCACCGTTGGCCCGCGTGCTTTCTTGGTCACCAGATTTGCCTGCAAACACAGTGCTCTTGATAAATCTCCCAGTTTTAGGAAAACTAAGGCATGTTCCCAGCTCCAGAGACATCTGCCCTGCCTCCAGAAGAACCGTGCCTTTCTGCATGGAGATGCTCACAAGGTTTCTGCTCGCCGCGGAGCAGCTGCAGAGAGAGGGAAGGTTCTGGAGGATGGAGCAAACCCACCTCCTCCTTGCTGCTCTGCAAAAAAGAGCCTCACTCGCCCTGCAAACACCGGATTAACATTTTGCCGGCTTTCTTTCTTTTGCATCTGCTTCAGGATGGCAAGAACTTAGGTACGTGTTCCTTCTTTGCTGCTTCAAATAGTCGGTGACTTCCCACAAGGAATTTTTTAAGGCCATTAAAAAAGGCCCTTCTCTGAATCATCAGGAATTGCGAATCTGCCTGAATCATGGGAAGTTTTCCAAGAGATTTTTTTTTCTCCTCTCTAGCATTTGCCAGAAGGCTTTGCATCATAGGTCTTTTCTTTTAAAGCAAGATGTACAGCATGCATAGGAACAAATCAGCTAGTTACTTTTCCTTGCAGTAGGACACGGTGATCTTGGTTTATCTAAAGAAACCGAAGCTGCATTTTAACTGGCAAGCTGAACTTCCCAGTGGTTTTGTCTGAGCTGCTTTGTTTTCCTCTGCTCAGTTTCTTTGCTTTGCACAGTGGGAGCAGTGACTCTTGGTAGGATCAGGAAAATCCATTTGCTCGCAGGTACCCATTTATGGAGCTAAGGTAGCTCCTCTTTGTCTTTATGTAACTGCCAGAGAGAAATTCTTCCATGGTCCTCTGTGTTGCCAAATAATAATCACCTTCCCATTCCTGGGGTGAAGCACATGGCAGAAGCATGACTTGCCCACGATATCTGGTGTGGGCATTGGAAAAATTTCAGTTAAAAAGCAAAGACTCACATATGAACTGCCTTGTTTAAATGTACAAATGAGATTCAGAGAACACACCAATTTGAACATCCGTGGCAATGGAAGCAAAGCAGCTGATTGCTGCGAAGCGCCAAGGCGGACTTCGTGCATTTTCCTATTGCCCACTCAGTTCAAACACCTTCTGCCCTACCAAGTCTTGGACTTTCCTTGTGAGGGGTTTGGATGTCCTTGGATGGAAGATATTTGTAAAAATATTTGTGATCTCCTGCAGGGGAAAGAAGAACTTGTCATTTAATTATATCGTCTTTCTTGTACTCTTGAGCCACTGAGCGGAATGGGGAGAAATGGGAGGTTCCCCAATTCATTGTGTACCGTAGAGCTGAACATCCTTCAGTGCTTGCTTATGCAAGAGGTAAGGATTTCTGTCCTCTTTTATTTCTGCAAACTTATTTCTCATTTTTTATATTTTCCCATTTTCTTAGGCCTCTCTTTTTTTCTCTTCAATTTACAGCTTGGGCTGTCATTCCTTCTAAACAACTTCCTACTTGCCTCTTCCTTTCCACAGAATGTGGCTTTGGCCAGACTGTGGCCTCTCTCCTTCAGTAACTTCCATCCATTTTGCTCAGTGAATCTCTTTCCTAATTGCTGCAGAGCAAGGTGAAGGGTTCACATGCTTCTGCAGTTGTTCCATTTAGGAGGCAGTAGAAGGTCCCTACGTATTCTGCGAGTGGTTGGGTTGGTTTCAGCGGAATAATCAACCTTGGATTTGTAGAAAACTGTTTTCCCACTAAAGTGGGATTGTCAGAGGTCACCTATATCTTGCAGATGGACACCTGAGGATCCTGCTTGCGTGTGTGTGCCAATGGAGTGACTTGCAACTTCGTCAAGTCACATGCATCGTTTGGAAACAGGCCCTCCAGCGCAGAATGTCACCTTGAGGGTGTGGAACTGGGAAAATTACAGGGATGTGAGCAGGCAGTGCAGGAGAGGCGTTTGTGTAGCGCGTGCTTCAAGAGCTTCCACTTTGGATTCTCTATGGCCCTATGAAGGGATGCCGTTACTGAGCTTCATGAGCATCACAAGGAAGGAAAAGAGGGAAGAAGCGAAAGATTGGGGCCAGCTCAAAAACCAGCCTTTTAATTTCGTTTCCAAAAGCCTTTTCCAGGACTTGGTGCCTAGCAATGTTCTTCTCCGCTCCATCTCTCCAGTAGGCTTAAAAGGAGCAGGCAAGAATGGGAGGTGAGAGAATCTTGGCATCCCTTCTGCTTCTGAGATGGAATGAGTTTTCTTATGTAGACAGATTGTGGTGCTCCTAAAACTTCAATATCTCTAGATATTACATGTTGAACACTGCTTATTTTCTTAAATGCATCTTTTTGGAAATGTTTTATTTGATAAATTTCAAAAAGATGTCATGTATTCTTCCTATGTTGGGCTTCAAACAAGAGATTTGAATGAGCAGAACATGGCAGACAATTATTTTCCCCACTCTGTAAATAACTCTACTATTGAAGAGTAATTTTTCCTCCTTTTTGTAGGGATGGAAAAATGTTTTCTGTATCAGAAAGTACAACTTGATGAGCCAAAAGCAGGCTTAAATATGAATGTGAAATATTTTTCAATTCTTTGTGCATATATACATATCTGTAAAATATTCTTCCAACATTCAGGGTGCTGGAGTTCCCTGCAAATCCATTTTGGAAATAGTTGTGTTGGAGGAACTTGCTCAGATTGCTTTCAGAACGTCTCTGCTCTCTTTTGCTTCGCACTGGGAGTAAGGCAGTCATCATGTTACCACTGCAGGAATGTGGTTCCATATGTTCATATGCTGTTCATAAAGCTGTTTTCTTCTTCAGCCTTCTGCCCACTCCTCCTCACTTTTCAGCCATTACAGAAGTGCTTAATGTAAAAACCAGCATGAAGTAGGATTAGTCTAAATCTTTGTGTATCTGGAGTTCTTTTTGCCGTCACTCGATCACTTCCATCGTACTCTCCAGCATAGCTTCTTTCATGCATTATTTTGCAAATAATTTTAGAGAAAACTTGACTTTTGTGATATTCCTTCTTTTATATGGGAAATATTTTAGGTTTTCTAGAGCCAGTGTTAAGAAAACCAATGTGTCCAACCAGTAGGATGTCCAACCAATTGCATTTATAACCAATGTGTCCAACCAGTTGGATGTCCAACCAATGGGATTTCCAGCCAACGTTAAGAAAGCTAAAATGGGCAGAACCTTTTTACAACTCTTTAACATCAGACTTTTGGAAGTTCAGCCAGGCTCTGTCTCTTACAAGAAGACTGCAAAATGCCTTTTTCCAGGTATCGCCTTTCTCTTGAGTTTTGTGCTTTGCCTCAGCAGATCTTAAAAGAGCTTAAGGATGTTCTTGGACCCGAACCAGAGAACATTTTAAGAGCGTGCAGCCATTTTGAAATTGACTTTTAATATGTCAGCAGCATACAGAAGAACGAAGACAAGATTTTAAATTGCCAAATGCTTTTTGGCTTTTGTGCCCATCTTTCTATTTAGGAGGCCAAGTGGAGATTTACCCGGGATTTTATAAGATACACCTGGGAGATCTTGGAACCACCAGAATCGATGAGCAGACTGGAATGCACCGGGCTACTGAAAGGCCCAGTTGTGATGAGCTTTATAGAAAGCAGTTAAGTCCCACGAGCATTACAGCGTTAAAGAGAGAAATTTGGCCTGAGCATGGAAGAGAAAACACAGAACGGCCTCGTGGAAGGTCATGTAACAGGAGATGGACCAAGCTGGCAAGCAGAATGTGGAGTTCATGTGTGGTGGGCAGTCGCTGATCCTTGGACAGCTTGTGTTACCCACAGGGTGTGCCAAATTTCTGGCTCATTCCTTGTGAAATGGCTTTTGCGAGCGTGTGTGACCCTCAGTATGGAGCCACTTGCGTCTGCTTCCTGTTGAGCCTGGCTTGCTTTTCTAGCTCAGTGCTGAGTCTTGGCTGGGCTCACATCCATGGTGCAGCATGCATCGGTCTCCGGGTGAGGAGTGGATTTGCTTTGGGCTTGCAGGTTGGAGTGCTGCTGCACACTGATTCCCCATGTAGAATGGAGGCAGAATGGAACTTGCCCATCTCACACGGCCACTGCATGGTGATCTTCAGGATTTTCTGTCTTTATCTACAGAATTCTCATCACAGCATATTATACACAGAGATTTTATTCCTTTAAAAGCTAGCCGTGTTGGCAGTTACTGTTGTGCTAGGGCTACAAGTGGAGCCTGTGAACATGTGGTGGACGTTCCCCTCTGAATCTGGGGATGAGAAGAGATTTAAGGTTGAGCGTTGGGTGAGCCGTGATGAGTTTGCTATGTTGGGAAAGGAGAGAGAGCTGGGTCTTAAAACTGAGAGGCCCTTGAGCACCCTGTAATCAGCAGCTTTGAAAAGCTTCTGGCCTTTTATAATATTCTTACGTGTCAAGGTAATCTGTTCATTAATTCTTCATGCTGCAATTTAAGAGCTCTCTAAAGTTGTCTTTAAAGCACTCTTTGTTGGGAGATGCATTAGTGGTTGTACTAACTAATACTTCTCACTTAGCACTGAACCACAATCTGATTTTCATTTCCTTCTCAAATAATTCACTGCTCAATGGCCTAATTTACCCAAGTGAGCTAAAACATGTCGTTTCCCTTATGAGGAGGATGATGACAAATCTCCGAAGAGCGATGCTCCTGGGGGAGCACAGCGGCTGCGTGGGCAGGGAGCCCCCATGGGTTCCCCTCTGCAGGGCATTGGGAGCCCAGATTCACTAATTTTCACTAATGGTCACTAATTAACAGCAGTAAGAGCACGTGGCGGTGAATGGGGCTTGTGCTCTCCTGGCAGGTAAGGTTTGATAGTGGTTAGCAAGGTGTGGGAAGGAGGCACAACCCCGAGTGCTGTCCCATAAGGGTGGGCTCATACACGGGGCTGTGGCTGGAGGGCTGGGTTCAGCTGCTGCTTCTGCAAAGAAATCTGTGATCCTTGGATGCCTTGGACCTTGGTTCTTATGTATTGGATAGGGATAGTGCTTCTGCCCTGTGGGGTGGAGATATGTGCTCCTGGATGGAAGATGTTGCTTCTGCTGTCTGTAGTGTCTAGCAAAACGGATGGCTTGGAGTAGAACTATTCATGATGTGCTGGTGGGTATATTTCACCCTAATGGGAACTTCTTACAGGAGATTATCATTTAAAAATACAGAAAACACAGGATTTTCTCTACATAAAAGTTGTTGGTCTTTTCTTTGTGCTGTTCATGCTTTGATTTTCATGCATTAACTCTTTCTCTCTCTCTCTCTCTTTCTTTTTCTTTCTTTCTTCCTTTCTTTCTTTCTCTACAG
Seq C2 exon
ACCTTTGTAGTACTAAACAGAGGGAAAACACTCTTCCGATTTAGTGCCACACCTGCCTTGTACATTTTAAGTCCTTTTAATCTGTTTAGAAGAATAGCTATTAAAATTTTGATACATTCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006060:ENSGALT00000009776:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.489 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
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]