GgaINT0095209 @ galGal3
Intron Retention
Description
NA
Coordinates
chr2:336440-336765:+
Coord C1 exon
chr2:336440-336598
Coord A exon
chr2:336599-336685
Coord C2 exon
chr2:336686-336765
Length
87 bp
Sequences
Splice sites
5' ss Seq
ACCGTGAGT
5' ss Score
9.4
3' ss Seq
GACGGCCCATTCCCCCACAGCTC
3' ss Score
9.19
Exon sequences
Seq C1 exon
TGGATGGGCCCTGGACCCCATGGACCCCCTGGAGTGAGTGCTCAGCCTCCTGCGGGCCGGGCCGCCAGCGCCGGTACCGCTTCTGCTCTGCACATCCCGGGGTGCCCTGCGCAGAGCCACAGCCTCAGGAGCGTCCCTGCGCCCGGCAGCCCTGCCACC
Seq A exon
GTGAGTGCCCAGAGCTGGGAGTGGGGATGGGTGCTGGTGGGAACGGGGATGGGGGCCATCCTGTGCTGACGGCCCATTCCCCCACAG
Seq C2 exon
CTCCCGACTGTGCCGCAGTGCCAGGGTCGGTGTTCAGCCACTGCGGGCCCCCCTGTCCCCGCTCCTGCGATGACATCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004919:ENSGALT00000039375:44
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.028 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=WD(100=87.0)
A:
NA
C2:
PF0182612=TIL=PU(41.8=85.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTACCGCTTCTGCTCTGC
R:
CGAGATGTCATCGCAGGAGC
Band lengths:
167-254
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]