GgaINT0123778 @ galGal3
Intron Retention
Gene
ENSGALG00000001645 | KCNT1
Description
NA
Coordinates
chr17:8911271-8912527:-
Coord C1 exon
chr17:8912399-8912527
Coord A exon
chr17:8911575-8912398
Coord C2 exon
chr17:8911271-8911574
Length
824 bp
Sequences
Splice sites
5' ss Seq
GAGGCAAGG
5' ss Score
2.53
3' ss Seq
GTCACCGGCCGGGCTTCCAGTCA
3' ss Score
3.26
Exon sequences
Seq C1 exon
ATGAAGATCACGGAGGACGACCTGTGGATCCGGACCTACGGGCGCCTCTTCCAGAAGCTCTGCTCCTCCAGCGCTGAGATCCCCATCGGCATTTACCGGACGGAGTCGCACATGTTCGCCACCTCCGAG
Seq A exon
GCAAGGGGCAGCACGTGTGGGAAGGGCAGCAGCATTCCCACCCCGACCCACACCCCGGGGGGCCTCCTGTCTGTGTGTGAGCGTGGTGCAAATGCTCAGCCCTCAAAGAGCAGTGCGGGCCAGCACTGCAGCACTGAGCGGTTGTTGAATTACCAGGGGATGCTGCACAGGGGATGCTCATTCCCTGGCTGACAGTTTTTTCCCCTTTTCTTCCCCCAAATGCAGCCCCATGACATCAGAGCACAGGTGAGTACTGCTTGCACACAGACCCGGGATTATCGGTTCTGCCTCCGGCCCCCGCAGTGCACATGTGGGCGGTGTCAGGGATGGTTTTCCTCGGGCGAGATGTCCCCCACAGCACCAGCAAACAGCCAGAAGGTGTAATTACTGGGAGAGGGAGCAGGATCCAGACTCCGCTGTGAATACCTTCAGTTTTCAGCTTTGTGGAGGCAGCTGCAGGGCGCTGAAAGCTGACATTTAGCTTGACGCAATCCCCATTCATCCTTAGAGGTGCTTTTATCCCCTTTATTAATAAATCAGTGCTTACCAGTGGAGCTCCCTATAGCAGAGGTGCGGCAGCAGGTCTGCCGCGATGTGTCAGAGAGGAAGGTGAGAGCAGGAGGGAATGGCACTGATGGAGATGCGGTGCCCACTGCACCCCATGGCTGCTGGCGTTCCAGAGCCCCCATCCCAGAGCTGCTGCCCAGGTGCTTTAGCAGCACGGGGACGCTGTGCTGGCAGTGCACGGCTAAGAGATGGGACCCCGTCCCAGAGCAACTCCCGTTAGGTGGCCCCGCGGTCCCCGTCACCGGCCGGGCTTCCAG
Seq C2 exon
TCACAGATCTCCATCAACGTGGAGGACTGCGAGGACACGAAGGACGTGAAGGAGCACTGGGGCATCAAGACGGGCCACCACAGGAACTCGTGCTCCAGTGACCAATCCGAGCACCCGCTGCTGCGGCGCAAGAGCATGCAGTGGGCACGGCGGCTGAGCAGGAAGGGCAACAAGCACTCTGGCAAGACAGCCGAGTGGATCAGCCAGCAGCGGCTCAGCCTGTACCGCCGCTCCGAGCGGCAGGAGCTGTCCGAGCTCGTCAAGAACCGCATGAAGCACCTGGGTTTGCCCACCACCGGGTACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001645:ENSGALT00000038919:28
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.418
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTTCCAGAAGCTCTGCTCCT
R:
GTTCTTGACGAGCTCGGACAG
Band lengths:
350-1174
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]