GgaINT0123766 @ galGal3
Intron Retention
Gene
ENSGALG00000001645 | KCNT1
Description
NA
Coordinates
chr17:8916855-8917710:-
Coord C1 exon
chr17:8917602-8917710
Coord A exon
chr17:8917005-8917601
Coord C2 exon
chr17:8916855-8917004
Length
597 bp
Sequences
Splice sites
5' ss Seq
GCAGTGAGT
5' ss Score
7.39
3' ss Seq
GCACGCTGCTGTTGTTGCAGGGA
3' ss Score
6.32
Exon sequences
Seq C1 exon
ATCACGTCGTCTGTGAGGAGGAGTGCAAGTACGCCATGCTGGCGCTCAACTGTGTCTGCCCCGCCACCTCCACGCTCATCACGCTGCTGGTGCACACCTCCCGTGGGCA
Seq A exon
GTGAGTGCTGGGGGGCACAGCCATTCCCCTGGGGGTCCTGTCCCCATGGAACTCCCAGCCCCAATTACAGCCCTGGGTTCTCTCCTGCCAAGCAGGGGCGGGTGGTGCTGGGGCACTGCAGTGTCCCCGGGTGGGTTTGCTGGAGGGCAGCAGTACAACTTCCCATTTGTATCATGCAGATCCCGCTGGCAGGCAGCAGAATGCACAGACTGTACAGAGCCAGAGCCTGCGGGGTGTTCTGTGGGTTTACACAGAGCACAGCTGAAAGCAGCTCGGTGTGGTGCTGGTGTGGGCCCTTTGCACTCTGGTGGAGCCAGAAATTACTGAATTTTGGGTGACGTGACATCAGAGGGTTGCAAAATTCTATCCCAGAGTGTGTCTCACCACATGCTTTGAGCTGTTTGCCAACACTGGCTCTCAGCCCTGCCTCTGCAGCTCCACTGGGAGCCCTCATTAAATACAAACGCAATTAGAATCAGAAATCAGAAGGAGATCAGCCCCCACCTGCTGCACCAACAGCTCTTATCGCAGCACCCTGAGGGTTCCTTGGGGCCCTGCTGGCTGCAGCCCCATCCCCGCACGCTGCTGTTGTTGCAG
Seq C2 exon
GGAGGGCCAGGAGTCCCCGGAGCAGTGGCAGAGGATGTACGGGCGCTGCTCGGGCAATGAGGTCTACCACATCCGCATGGGTGACAGCAAGTTCTTCATGGAGTACGAGGGGAAGAGCTTCACCTACGCCGCCTTCCATGCGCACAAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001645:ENSGALT00000038919:16
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=0.118
Domain overlap (PFAM):
C1:
PF0349313=BK_channel_a=FE(34.0=100)
A:
NA
C2:
PF0349313=BK_channel_a=FE(47.2=100)
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:
ATCACGTCGTCTGTGAGGAGG
R:
TTCTTGTGCGCATGGAAGGC
Band lengths:
259-856
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]