GgaINT1023337 @ galGal4
Intron Retention
Gene
ENSGALG00000006348 | RAPGEF3
Description
Rap guanine nucleotide exchange factor (GEF) 3 [Source:HGNC Symbol;Acc:HGNC:16629]
Coordinates
chrLGE22C19W28_E50C23:436031-436475:+
Coord C1 exon
chrLGE22C19W28_E50C23:436031-436109
Coord A exon
chrLGE22C19W28_E50C23:436110-436324
Coord C2 exon
chrLGE22C19W28_E50C23:436325-436475
Length
215 bp
Sequences
Splice sites
5' ss Seq
TCAATATCC
5' ss Score
-14.34
3' ss Seq
GTGCCCTTAACTGGTCCCAGTTT
3' ss Score
2.72
Exon sequences
Seq C1 exon
ACACACTCCTAGGGGATTTCCTGCTGACCTACACTGTGTTCATGCCGACCTCGCAGCTCTGCAGGGCTCTGCTGCATCA
Seq A exon
ATATCCTTCTGCTGCTGATGGGGGGCCCGTGGCACGCAGCCCCTCCTGCAGGGACCACCTTGGTCCCTGTCCCCCCACTGGGACATTGGGATGGCGGTGGGAACCCCAAATCTCCAAGCGAAGGGCGCATCCCCATTCCCTGTCCTCGTGGGGCGAGGGGTCCCCTCGCTGCCTTTGCCCACGTCCTCCATACTGGTGCCCTTAACTGGTCCCAG
Seq C2 exon
TTTCCGTGCGGAGCCGCTGGATGGCTCAGAGCAGGAGAAAGCCACCTACTGCCTGCACAAGCGCCGCAAGATCCTGCGCCTGGTGAGCCAGTGGGTGCTGCTCTATGGGAGGCTGCTGCAGGGCGACCGCAGCACCACGGCTCTGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006348:ENSGALT00000010260:12
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=0.039
Domain overlap (PFAM):
C1:
PF0061815=RasGEF_N=FE(23.6=100)
A:
NA
C2:
PF0061815=RasGEF_N=FE(45.5=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:
ACACTCCTAGGGGATTTCCTGC
R:
CTGCAGCAGAGCCGTGGT
Band lengths:
228-443
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]