GgaINT0000935 @ galGal3
Intron Retention
Gene
ENSGALG00000006348 | RAPGEF3
Description
NA
Coordinates
chrE22C19W28_E50C23:451144-451380:+
Coord C1 exon
chrE22C19W28_E50C23:451144-451206
Coord A exon
chrE22C19W28_E50C23:451207-451298
Coord C2 exon
chrE22C19W28_E50C23:451299-451380
Length
92 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGG
5' ss Score
8.76
3' ss Seq
TCTCCCCCCTCTCCCTGCAGTCT
3' ss Score
12.92
Exon sequences
Seq C1 exon
CGCCTTTCCTCCTCTTGGTGCAGGATGGAGAACGGGGACGGCAGCATTTCTCCCCAGCCCAAG
Seq A exon
GTAGGGGCAGCCCTGGGGGTGTCAGGAACAGGGAGACGGGACGGGGTATCAGAGGGGTGCCATGCTTCCCGCTCTCCCCCCTCTCCCTGCAG
Seq C2 exon
TCTCGGAGCTCCATGAGCTGGCTCTCCAGCCAAGACGAGGCAGCTTTGAGCAGCAGCTGTGCCTTAAGAGCCCACGATAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006348:ENSGALT00000010260:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.429 A=NA C2=0.321
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCCTTTCCTCCTCTTGGTG
R:
GGCTCTTAAGGCACAGCTGC
Band lengths:
135-227
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]