GgaINT0142778 @ galGal3
Intron Retention
Gene
ENSGALG00000003354 | KCNH4
Description
NA
Coordinates
chr27:4506617-4507204:-
Coord C1 exon
chr27:4507129-4507204
Coord A exon
chr27:4506851-4507128
Coord C2 exon
chr27:4506617-4506850
Length
278 bp
Sequences
Splice sites
5' ss Seq
GCAGTGAGC
5' ss Score
3.29
3' ss Seq
GCAGCTGTGTCTCCTTTCAGACA
3' ss Score
8.51
Exon sequences
Seq C1 exon
CAGCAGATGGTGAGGGGGAGGCGCAGATCGCCTCGCATGGGATTGTGTCTCATTGCAAGGAGAGCCAGGGGCCGCA
Seq A exon
GTGAGCCCCTTCCCCTCCCAGTGCGGGGGGCTGGGCTGGGGGTCTCTGGGTGTGGGGTGGCAGAGCAAGGGGGGGCCTGGCGTTGGGGTCTCCCCATGCAGGGCACAGTTCGCAGCATGGGACATGTTTCCCCTTGGCTCTTTCCCCTTGGCTTGCAGCCACGTGCTGTGCATCCCCTGGTGCAGACAGTGATGTGTGGCCACTGCTCTGCTGGGGAGGAGAGGGGGTGCCCCCTAGAACAGCCCCGAGCCCTCAGGGGCAGCTGTGTCTCCTTTCAG
Seq C2 exon
ACAGCAATTTCATCCTGGCCAACGCTCAGGTCCGCCGTGGCTTCCCCATTGTCTACTGCTCTGACGGCTTCTGCGACCTGACCGGCTTTGCCCGCACCGAGGTGATGCAGAAGAACTGCAGCTGCCGCTTCCTGAGTGGGGCTGAGACCAGCGAGCCCGTCCTGCAGCGCATTGAGAAGGTGCTGGAGGGCAAGCAGGAGCAGCAGGCAGAGGTCTGCTTCTACAAGAAGGGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003354:ENSGALT00000005306:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.192 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134261=PAS_9=PU(70.6=97.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCAGATGGTGAGGGGGAG
R:
AGACCTCTGCCTGCTGCTC
Band lengths:
292-570
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]