GgaINT1023340 @ galGal4
Intron Retention
Gene
ENSGALG00000006348 | RAPGEF3
Description
Rap guanine nucleotide exchange factor (GEF) 3 [Source:HGNC Symbol;Acc:HGNC:16629]
Coordinates
chrLGE22C19W28_E50C23:436835-437048:+
Coord C1 exon
chrLGE22C19W28_E50C23:436835-436874
Coord A exon
chrLGE22C19W28_E50C23:436875-436966
Coord C2 exon
chrLGE22C19W28_E50C23:436967-437048
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
GATGGAGAACGGGGACGGCAGCATTTCTCCCCAGCCCAAG
Seq A exon
GTAGGGGCAGCCCTGGGGGTGTCAGGAACAGGGAGACGGGACGGGGTATCAGAGGGGTGCCATGCTTCCCGCTCTCCCCCCTCTCCCTGCAG
Seq C2 exon
TCTCGGAGCTCCATGAGCTGGCTCTCCAGCCAAGACGAGGCAGCTTTGAGCAGCAGCTGTGCCTTAAGAGCCCACGATAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006348:ENSGALT00000010260:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.250
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACGGCAGCATTTCTCCCC
R:
CTCTTAAGGCACAGCTGCTGC
Band lengths:
97-189
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]