GgaINT0000934 @ galGal3
Intron Retention
Gene
ENSGALG00000006348 | RAPGEF3
Description
NA
Coordinates
chrE22C19W28_E50C23:450819-451206:+
Coord C1 exon
chrE22C19W28_E50C23:450819-451062
Coord A exon
chrE22C19W28_E50C23:451063-451143
Coord C2 exon
chrE22C19W28_E50C23:451144-451206
Length
81 bp
Sequences
Splice sites
5' ss Seq
GTCTCCATC
5' ss Score
-31.19
3' ss Seq
CGCTGCTGCCCTCTTAACAGCGC
3' ss Score
8.82
Exon sequences
Seq C1 exon
GATTCGGGTGTCCCGCGGGGTCCCATGTCACCGCTGTGTCACACCCATAGGTGTACCCCCCCCCGTATCCTCCCATAGAGCCTCGCCCATCTGGCGAGCCAGGACCCTCGGCTGGGGGCCATGGTGCAGGAGCAGGAGCGGCGGCGGCCCCGAGCGTGAGTCCCATGGGCATCTCCATCCCATAATGACCCGGCGCCACCTCCGTCCGTTGGGTCCTTGTGCCCTCGGGGTGACCGCGGACGTC
Seq A exon
TCCATCCCATAATCACCCGGTGCCACCTCCATCCTTGTGCCCCCACGGGTGGCATCCCCAGCGCTGCTGCCCTCTTAACAG
Seq C2 exon
CGCCTTTCCTCCTCTTGGTGCAGGATGGAGAACGGGGACGGCAGCATTTCTCCCCAGCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006348:ENSGALT00000010260:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.293 A=NA C2=0.429
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
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGGCCATGGTGCAGGAG
R:
CGTCCCCGTTCTCCATCCT
Band lengths:
170-251
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]