GgaINT0010613 @ galGal4
Intron Retention
Description
NA
Coordinates
chr20:5579335-5579820:-
Coord C1 exon
chr20:5579730-5579820
Coord A exon
chr20:5579449-5579729
Coord C2 exon
chr20:5579335-5579448
Length
281 bp
Sequences
Splice sites
5' ss Seq
CCCGTGAGT
5' ss Score
8.4
3' ss Seq
TCCATCAGCGTACCCTGCAGCCA
3' ss Score
2.66
Exon sequences
Seq C1 exon
CCGCAAACCAGAGCTGCTTTCTACAGCCCCAGCCCAGTTGTCCCTGTCCGTCCTGCCACTCGCTGGAGTGCGCAGCCCACCCGGCCTCCCC
Seq A exon
GTGAGTGCATCCATCTGTCCCTCGCTGTCAGCAGGGCTGGTTCAGGGACCAGGACACTCTCTTAAAGACACCACAAAGTGTGTGGCCGTGGGAAGCTGTCACCTGGGGAAGCATGCGGTGTCCTGATGTAGGGCTCACTGGTGGCAGGCACTGGGGCTCAGGCTAACCACAGAAACTTTCCCTGAGCGCAGCCACCTCCCAGCACATCTCCTCCAATGCTTTTTTTTTCTATCAGAAACTTCATTAATTGTGCTCCATCTCTCCATCAGCGTACCCTGCAG
Seq C2 exon
CCACACCCATCCTGAGGGCTGCTGTGCAGCCCCGGCGCCTGCTGTCCAACATCAGCACCATGAGACAGGCGTCCACCCAAGTGCCTCGTGTGCCCCCCCAGGCGCAGAGAGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004123:ENSGALT00000006565:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.677 A=NA C2=0.872
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCAAACCAGAGCTGCTTTCT
R:
CCACTCTCTGCGCCTGGG
Band lengths:
204-485
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]