GgaINT0123767 @ galGal3
Intron Retention
Gene
ENSGALG00000001645 | KCNT1
Description
NA
Coordinates
chr17:8916521-8917004:-
Coord C1 exon
chr17:8916855-8917004
Coord A exon
chr17:8916760-8916854
Coord C2 exon
chr17:8916521-8916759
Length
95 bp
Sequences
Splice sites
5' ss Seq
GAAGTGAGG
5' ss Score
3.71
3' ss Seq
GCGCCGTGATCCCAACACAGATA
3' ss Score
3.39
Exon sequences
Seq C1 exon
GGAGGGCCAGGAGTCCCCGGAGCAGTGGCAGAGGATGTACGGGCGCTGCTCGGGCAATGAGGTCTACCACATCCGCATGGGTGACAGCAAGTTCTTCATGGAGTACGAGGGGAAGAGCTTCACCTACGCCGCCTTCCATGCGCACAAGAA
Seq A exon
GTGAGGGCAGGGGTGCGGGGCTGGGGCCAGCACTTGGAGTGCCTTGTGTAGGGAGGAGGCTTTGCTCCAATGCCTGCGCCGTGATCCCAACACAG
Seq C2 exon
ATACGGCGTCTGCCTGATCGGCATCCGCAGGGAGGAGAACAAGAGCATCCTGCTGAACCCCGGCCCGCGGCACATCATGGCTGCGTCCGACACCTGCTTCTACATCAACATCACCAAGGAGGAGAACTCTGCCTTCATCTTCAAGCAGGCAGAGAAGCAGAAGAAGAAGGGCTTTGCAGGCAGGGGCACCTATGACGGCCCTTCCCGCCTGCCCGTGCACAGCATCATCGCCAGCATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001645:ENSGALT00000038919:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.118 A=NA C2=0.062
Domain overlap (PFAM):
C1:
PF0349313=BK_channel_a=FE(47.2=100)
A:
NA
C2:
PF0349313=BK_channel_a=PD(8.5=11.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGTACGAGGGGAAGAGCTT
R:
GCAGAGTTCTCCTCCTTGGTG
Band lengths:
183-278
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]