GgaINT1023356 @ galGal4
Intron Retention
Gene
ENSGALG00000006348 | RAPGEF3
Description
Rap guanine nucleotide exchange factor (GEF) 3 [Source:HGNC Symbol;Acc:HGNC:16629]
Coordinates
chrLGE22C19W28_E50C23:433888-434208:+
Coord C1 exon
chrLGE22C19W28_E50C23:433888-433972
Coord A exon
chrLGE22C19W28_E50C23:433973-434147
Coord C2 exon
chrLGE22C19W28_E50C23:434148-434208
Length
175 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGT
5' ss Score
11.11
3' ss Seq
GTGGCTGCCCTTTGCTGCAGGTG
3' ss Score
9.48
Exon sequences
Seq C1 exon
GCCTGCTCAGCGCACAGAGGACGAGCTGGAGCTCATCTTTGAGGAGCTGCTCCACATTAAAGCCGTGGCTCACCTCTCCAACTCG
Seq A exon
GTGAGTGTGGGCTGCACTCTGCCGCCCCGCATCCATCCCCTCCAAAGCCTCCTGCATCCCATTGCCTCCCCTCCGGGCATCCTCCCGTTCTCCTGGCCCATTGCAGCCAACCCTGGGATCCTGTTGTCACCCTGTGTGTCCCCTCCATGCTGAGGGTGGCTGCCCTTTGCTGCAG
Seq C2 exon
GTGAAACGGGAGCTGGCATCTGTGCTGATGTTCGAGTCGCACCAGCGAGCCGGCACCGTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006348:ENSGALT00000010260:6
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:
NO
A:
NA
C2:
PF0002724=cNMP_binding=PU(9.3=38.1)
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:
CCTGCTCAGCGCACAGAG
R:
GCTGGTGCGACTCGAACATC
Band lengths:
130-305
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]