GgaINT0024811 @ galGal3
Intron Retention
Gene
ENSGALG00000002198 | FHOD1
Description
NA
Coordinates
chr11:1328098-1328456:+
Coord C1 exon
chr11:1328098-1328337
Coord A exon
chr11:1328338-1328384
Coord C2 exon
chr11:1328385-1328456
Length
47 bp
Sequences
Splice sites
5' ss Seq
GGGGTGACA
5' ss Score
-1.72
3' ss Seq
GGCTCCCATGCCCTCTCCAGCCT
3' ss Score
4.55
Exon sequences
Seq C1 exon
GGGTGTGCACACCTCTGCTCTAGCTCCATCTCTTCCCCCTCACTCCTCTCTGCCCGCGCTGATTCTCTCCTCTGCCCACTCTTTCTATCTTTTCCTTTTGCAGGCTGCACCAACCTGCTGCTGTCTGGTAAGTGCCCGTGCTCTGCGTGACACCTGCTTGCTGTACCCAGCCCTTCATCTCCTCTGCTTGCACCCTCTCTGGGTGGCCAGGACCCCCATACCACAACTGTCCCACTTGGG
Seq A exon
GTGACAGCACCCTCCAACCCCTTATGGGGCTCCCATGCCCTCTCCAG
Seq C2 exon
CCTGCAGCATCCTGGTGGCAGGTCGGGTGGTACTGGTGACAAGGACAGTGCTCCCAGCGTCACCAACACCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002198:ENSGALT00000003437:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.025 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
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTACCCAGCCCTTCATCTCC
R:
GAGCACTGTCCTTGTCACCAG
Band lengths:
132-179
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]