GgaINT0024824 @ galGal3
Intron Retention
Gene
ENSGALG00000002198 | FHOD1
Description
NA
Coordinates
chr11:1333034-1333456:+
Coord C1 exon
chr11:1333034-1333208
Coord A exon
chr11:1333209-1333279
Coord C2 exon
chr11:1333280-1333456
Length
71 bp
Sequences
Splice sites
5' ss Seq
CTAGGGATG
5' ss Score
-15
3' ss Seq
ATCCCCATGTTCCCATGCAGGGA
3' ss Score
8.31
Exon sequences
Seq C1 exon
ACCGAGAAGTTCTCTGGCATCACCGAGGCATCACCACCCGCCGTGGTGTCAGCCAGCCCCACGCAGCAGGAGCAGGCAGAGGTGGGCCACGAGAGCATGAAGAGCGTCCTGAGCTCGCCCACGGATGTCCCTGCCCGCCGCAGTCGGGGTGGCCGCGGTAGGAGCACATCACCTA
Seq A exon
GGGATGGGGTGACATTGGGGTGGCCCCAGGGAGCGCCCAGTTGATGCCAGCATCCCCATGTTCCCATGCAG
Seq C2 exon
GGACGGGGCTCACCACTCCAAGCCAGGGCTCCCCAGCCCAGGAGGACGTTCCCAGCTCACCCGACGACGCCTCAGATGAGATCATGGACCGCCTGGTGAAGTCGGTGACGCACAGTGCCAACCCCCGGCCCTGCCCCAGCCGGGAGCGCAGGAGGTCCCGCGGCAACAGGAAGTCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002198:ENSGALT00000003437:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.966 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
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGCATGAAGAGCGTCCTGAG
R:
TGATCTCATCTGAGGCGTCGT
Band lengths:
167-238
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]