GgaINT0032806 @ galGal3
Intron Retention
Gene
ENSGALG00000007899 | F1NJ26_CHICK
Description
NA
Coordinates
chr9:16708839-16709227:+
Coord C1 exon
chr9:16708839-16708951
Coord A exon
chr9:16708952-16709044
Coord C2 exon
chr9:16709045-16709227
Length
93 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGG
5' ss Score
4.41
3' ss Seq
GCTCCTGGCTCCCTCCCCAGGAG
3' ss Score
9.18
Exon sequences
Seq C1 exon
GCTTTGCACCAGCAGCCACGAGCGAGGAGCAGCTCTATGATCACCTGAAACCCACCCTGGATGAGGCCAACTTCATTGTCAAGCATATGCGGGAGAAAAACAGCTACAATGAG
Seq A exon
GTGGGGGCCATGGGCACAGTGGGGAATGGTGGGGATCCCTAGCAGAGCGGGATCCCTAGGCTCCCCATGCTCTGCTCCTGGCTCCCTCCCCAG
Seq C2 exon
GAGAAGGACAACTGGAACCGCGTGGCACGCACCCTGGACCGCCTCTGCCTGTTCCTCATCACCCCCATGCTGGTGGTGGGCACTCTCTGGATCTTCCTCATGGGCATCTACAACCACCCACCGCCACTGCCCTTCTCTGGAGATCCCTTCGACTACCGGGAGGAGAACAAACGCTACATATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007899:ENSGALT00000012824:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.067
Domain overlap (PFAM):
C1:
PF0293211=Neur_chan_memb=FE(15.8=100)
A:
NA
C2:
PF0293211=Neur_chan_memb=PD(13.2=50.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATCACCTGAAACCCACCCT
R:
AGGAAGATCCAGAGAGTGCCC
Band lengths:
174-267
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]