GgaINT0025117 @ galGal3
Intron Retention
Gene
ENSGALG00000001679 | F1NV44_CHICK
Description
NA
Coordinates
chr11:968645-969087:-
Coord C1 exon
chr11:968907-969087
Coord A exon
chr11:968779-968906
Coord C2 exon
chr11:968645-968778
Length
128 bp
Sequences
Splice sites
5' ss Seq
CCTGTAGGT
5' ss Score
3.22
3' ss Seq
GCTTTTTCCCCCCCCAAAAGCCA
3' ss Score
4.44
Exon sequences
Seq C1 exon
GCCGTCACGCACCCCAACTGGAACTCCTACACCCTCAACAACGACATCACGCTGCTGAAGCTCTCCTCGCCCGCCCAGCTGGGCTCCCGCGTGTCCCCCGTGTGCCTGGCTGCTGCCAACCTGGTTCTGTCCAACTCCCTGCAGTGCGTCACCACCGGCTGGGGACGCACCAGCACCACCT
Seq A exon
GTAGGTACCCCACGGCTCCAAGGGGGACTCTCATTGTGCTGGGAAGGTGGCAACACATGGCTGCACCCATTGACGTGCACACAGGGAGGCGTCTGGTTGAATAACACTGCTTTTTCCCCCCCCAAAAG
Seq C2 exon
CCAACGCTCTGGCGTCGCGCCTGCAGCAGGTCTCCCTGCCCCTGATCTCGCAGAGCCAGTGCCAGCAGTACTGGGGCACCCGCATCACCAGCTCCATGCTGTGCGCCGGAGGGGCTGGAGCCTCTTCCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001679:ENSGALT00000002569:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(26.8=100)
A:
NA
C2:
PF0008921=Trypsin=FE(19.6=100)
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:
ACCCTCAACAACGACATCACG
R:
CATGGAGCTGGTGATGCGG
Band lengths:
249-377
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]