GgaINT0025113 @ galGal3
Intron Retention
Gene
ENSGALG00000001679 | F1NV44_CHICK
Description
NA
Coordinates
chr11:969584-969896:-
Coord C1 exon
chr11:969836-969896
Coord A exon
chr11:969688-969835
Coord C2 exon
chr11:969584-969687
Length
148 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
CCTCCCGTGCCCCTCCTTAGGCT
3' ss Score
9.22
Exon sequences
Seq C1 exon
CTTCTGAGGATGGCGTTGCTGTGGGCAGTCACCTGCCTGGCCCTGGCCAGCACCGTTTCAG
Seq A exon
GTAAGCCCAACGCCGGGCAGGTGTCCACGTCCCTCTGCTCCGTGTCCTGTGGTGTTGGGGTGCGGGAGGCCTGAGGACGGTAGCACAGGGCAGGAGTGCGAGCAGCATGCGGGCACGAGCCCTGAGCCCCTCCCGTGCCCCTCCTTAG
Seq C2 exon
GCTGCGGGGTGCCCCTGATCAGCCCCTCGGTGCAGTACAGCGAGAGGATCATCAATGGGCAGAACGCGGTGTCCGGCTCCTGGCCCTGGCAGGTGTCCCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001679:ENSGALT00000002569:1
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0008921=Trypsin=PU(8.0=51.4)
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:
CTTCTGAGGATGGCGTTGCTG
R:
GACACCTGCCAGGGCCAG
Band lengths:
158-306
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]