GgaINT0031583 @ galGal3
Intron Retention
Gene
ENSGALG00000004463 | F1NSE5_CHICK
Description
NA
Coordinates
chr9:16700624-16701975:+
Coord C1 exon
chr9:16700624-16700732
Coord A exon
chr9:16700733-16701815
Coord C2 exon
chr9:16701816-16701975
Length
1083 bp
Sequences
Splice sites
5' ss Seq
AAGGTTGGT
5' ss Score
8.46
3' ss Seq
ACTCCCCTCACCTTTTTCAGTTC
3' ss Score
9.89
Exon sequences
Seq C1 exon
GAACCAGAACGAGTTGGCGTGGACGGTGGTGGTGGGCGACCACGAGCTGGGCAAGGCAGACCCCGGGGAGCGGGCAGTGCCCGTGCGGCGCATCGTGCCTCACCCCAAG
Seq A exon
GTTGGTGGAGGTGGGCACCCCCAGATCATTCCTACGTTCCCCATAACCCCTCAACTACACTCCCCTACACCTCCTTCAGTTCAACCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCCATAACCCCTCACCTACACTCCCCTCACCTTTTTCAG
Seq C2 exon
TTCAACCCCAAGACGTTTCATGGGGATCTGGCGCTGCTGGAGCTGGCGGAGCCGCTGGCACCGTCGGGCACCGTGAGCCCCGTGTGCCTGCCCAGCGGTACCACCGAGCCCAGCCCCGGCACCCCCTGCCACATCGCGGGGTGGGGGTCCCTGTATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004463:ENSGALT00000007102:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.189 A=NA C2=0.185
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(15.7=100)
A:
NA
C2:
PF0008921=Trypsin=FE(23.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAACCAGAACGAGTTGGCGTG
R:
GCTGGGCTCGGTGGTACC
Band lengths:
223-1306
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]