GgaINT0142789 @ galGal3
Intron Retention
Gene
ENSGALG00000003354 | KCNH4
Description
NA
Coordinates
chr27:4500942-4501351:-
Coord C1 exon
chr27:4501304-4501351
Coord A exon
chr27:4501226-4501303
Coord C2 exon
chr27:4500942-4501225
Length
78 bp
Sequences
Splice sites
5' ss Seq
CAGGTTCGT
5' ss Score
7.97
3' ss Seq
GCCCGCACCCACAGCCCCGCTCG
3' ss Score
-20.13
Exon sequences
Seq C1 exon
GGGCTCGGCCGCTTCGCCCGCTCCCCGCGCCTCTCGCAGGCATCGCAG
Seq A exon
GTTCGTGCTGTGGGATGCAGGGAGCCGCGGGGGTGCGGGGAGCAGCCCTGACCACTCTGCCCGCACCCACAGCCCCGC
Seq C2 exon
TCGGACAGCGGCCCCGGCCCGGAGCAGTCCCTCCCCTGCATCGCGGAGGACGAGGAAGAGGCGGATGAGGTCTTCCAGCGATCGCCCCCCGCCGTCGCCCCCCGCGAACCGCTGCTGCCTCCACGTAGCAGCCCCGCGCGGCTCCCCGGCGCTCCTCGCGGAGACGAGCGCGGCATCCCCACGGCGCGGCCCCGGGGGGAGGCGGGGGGCGGCGGGGGACGGAGGGCGGCTCGGCTCCTCGGCCCCTCCCTGCACGCCCCTGGGCCCCCCGAACTCAGCCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003354:ENSGALT00000005306:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.938 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCTCGCAGGCATCGCAG
R:
GGGGCTGCTACGTGGAGG
Band lengths:
153-231
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]