GgaINT0025118 @ galGal3
Intron Retention
Gene
ENSGALG00000001679 | F1NV44_CHICK
Description
NA
Coordinates
chr11:968185-968778:-
Coord C1 exon
chr11:968645-968778
Coord A exon
chr11:968487-968644
Coord C2 exon
chr11:968185-968486
Length
158 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CGCAGCTCTCGTCCCCGCAGGGT
3' ss Score
11.06
Exon sequences
Seq C1 exon
CCAACGCTCTGGCGTCGCGCCTGCAGCAGGTCTCCCTGCCCCTGATCTCGCAGAGCCAGTGCCAGCAGTACTGGGGCACCCGCATCACCAGCTCCATGCTGTGCGCCGGAGGGGCTGGAGCCTCTTCCTGCCAG
Seq A exon
GTGAGGAGCTGAGTTCCCCCCACACCAAGTGCCTGCGATGCGTGGGGCGTCGCATTTGGGGACTGGGAGCTCAAGGGGTGGCAGGGACCCGCTTGGAGCAAAGTCCTGGGGCCGGTGGGGATGGGGGCATCCCTAAACCGCAGCTCTCGTCCCCGCAG
Seq C2 exon
GGTGACTCCGGGGGTCCCCTCGTGTACCAGAACGGGAACGCCTGGACCCTGATTGGCATCGTCTCCTGGGGAAGCAGCAACTGCAACGTCCGCACGCCCGCTGTCTACACCCGCGTCAGCCACTTCCGAAACTGGATCGACCAAATTGTGGCCCAGGGGTAGAGCTGTGGGGATTGCTTCGCTCCAGCAGTGCCAGCACGGGGCTGAGCACAAAGCGGGGCTCACTTTGTTGCAGAGTAATAAAGCATGTGCTTGTGGCCAGCCCTGCTCCCGTCCTCTCGTGGTGCAGCGCAGCGCAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001679:ENSGALT00000002569:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(19.6=100)
A:
NA
C2:
PF0008921=Trypsin=PD(20.1=83.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAGCCAGTGCCAGCAGTA
R:
CTACCCCTGGGCCACAATTTG
Band lengths:
245-403
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]