GgaINT1023348 @ galGal4
Intron Retention
Gene
ENSGALG00000006348 | RAPGEF3
Description
Rap guanine nucleotide exchange factor (GEF) 3 [Source:HGNC Symbol;Acc:HGNC:16629]
Coordinates
chrLGE22C19W28_E50C23:439061-439473:+
Coord C1 exon
chrLGE22C19W28_E50C23:439061-439111
Coord A exon
chrLGE22C19W28_E50C23:439112-439385
Coord C2 exon
chrLGE22C19W28_E50C23:439386-439473
Length
274 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
GTCCCTCTGCCTGTCCCCAGGAC
3' ss Score
12.19
Exon sequences
Seq C1 exon
AGGCTGCCCCACAAGATCCGTAAGCTGCACGCGGCGCTGGAGCGGATGCTG
Seq A exon
GTGAGTGTGGCTGCTTCCCATGGAGCTGGAGGGTCTCAGTGATGGGATGGGGTTTAGGGCTCAGGGAGTAGAGCTGGGGGGTCTGCGCCTGCCCCCATATCTCTGGGTTTACTGCCACTCCCTGCTGCCCCTCCTTCCCCTAATACACAAAGTCACAGGGATGGCACGGAGGTGGTGCAACTCATGCTCCCGCATTTGGGATGTGCTGTTGCGGGGCACCCCCTCCCTACCTCTCTGCTGCCCCATCAGCCCCCGTCCCTCTGCCTGTCCCCAG
Seq C2 exon
GACCCATCATGGAACCACCGGGTTTATCGTCTGGCCGTCGCCAAGCTGAGCCCCCCCATCATCCCCTTCGTCCCCCTCCTCCTTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006348:ENSGALT00000010260:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=FE(8.6=100)
A:
NA
C2:
PF0061714=RasGEF=FE(15.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCCACAAGATCCGTAAGCTG
R:
CTTTAAGGAGGAGGGGGACGA
Band lengths:
133-407
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]