GgaINT0123759 @ galGal3
Intron Retention
Gene
ENSGALG00000001645 | KCNT1
Description
NA
Coordinates
chr17:8919642-8920030:-
Coord C1 exon
chr17:8919947-8920030
Coord A exon
chr17:8919737-8919946
Coord C2 exon
chr17:8919642-8919736
Length
210 bp
Sequences
Splice sites
5' ss Seq
ATAGTAAGT
5' ss Score
8.65
3' ss Seq
ACGCCTCCGTCCTCCCCCAGAAT
3' ss Score
9.73
Exon sequences
Seq C1 exon
ATATTTTGGCCTCCTCTGCGGAATTTGTTCATCCCTGTCTTTCTGAACTGCTGGCTCGCCAAGTACGCCCTGGAGAACATGATA
Seq A exon
GTAAGTGACCAGATGCATCCCTGTGGGCATCCCATCTCCTCCGCTCCCGCAACAAAGCGGGCTTGAGCCCTGCCAGAGGGCGCCGTCCCACCCCCAGGGAGCAGATTGCCAGCAGCGTGTCAGGCACTGGGATGGAGCCTGTGGGGCTGAAGCTTGGCTGGGCTGTGGGTTGGGCACAGCCTCCCTCACCACGCCTCCGTCCTCCCCCAG
Seq C2 exon
AATGACCTGCACCGTGCCATCCAGAGGACCCAGTCTGCCATGTTCAACCAGGTGCTCATCCTCATCTGCACCCTCCTGTGTCTCGTCTTCACTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001645:ENSGALT00000038919:9
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:
PF0788511=Ion_trans_2=PU(12.5=31.2)
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:
TATTTTGGCCTCCTCTGCGGA
R:
TGAAGACGAGACACAGGAGGG
Band lengths:
174-384
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]