GgaINT0031582 @ galGal3
Intron Retention
Gene
ENSGALG00000004463 | F1NSE5_CHICK
Description
NA
Coordinates
chr9:16700409-16700732:+
Coord C1 exon
chr9:16700409-16700545
Coord A exon
chr9:16700546-16700623
Coord C2 exon
chr9:16700624-16700732
Length
78 bp
Sequences
Splice sites
5' ss Seq
TGGGTATGA
5' ss Score
5.85
3' ss Seq
GCTCTCCATCCCTGTGCCAGGAA
3' ss Score
6.9
Exon sequences
Seq C1 exon
CGCATCATGGGCGGCAACGTGGCCAGGCACGGGGCTTGGCCGTGGCTGGTGTCAGTGCGGCTGCACGGGGAGCTGGTGTGCGGTGGGGTGTTGGTGAGCCGCGCGTGGGCTCTCACCGCCGCCCACTGCTTCAATGG
Seq A exon
GTATGATGTGGGGATGGGGGTGTGGGGTGGCACTGCTGTCCCTCCTGCCTAAATCGCTGCTCTCCATCCCTGTGCCAG
Seq C2 exon
GAACCAGAACGAGTTGGCGTGGACGGTGGTGGTGGGCGACCACGAGCTGGGCAAGGCAGACCCCGGGGAGCGGGCAGTGCCCGTGCGGCGCATCGTGCCTCACCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004463:ENSGALT00000007102:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.189
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(19.1=95.7)
A:
NA
C2:
PF0008921=Trypsin=FE(15.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTGCGGTGGGGTGTTG
R:
CTTGGGGTGAGGCACGATG
Band lengths:
171-249
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]