GgaINT1023351 @ galGal4
Intron Retention
Gene
ENSGALG00000006348 | RAPGEF3
Description
Rap guanine nucleotide exchange factor (GEF) 3 [Source:HGNC Symbol;Acc:HGNC:16629]
Coordinates
chrLGE22C19W28_E50C23:439846-440055:+
Coord C1 exon
chrLGE22C19W28_E50C23:439846-439900
Coord A exon
chrLGE22C19W28_E50C23:439901-439983
Coord C2 exon
chrLGE22C19W28_E50C23:439984-440055
Length
83 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGT
5' ss Score
11.45
3' ss Seq
TGCTTTCTGTATGCCCCCAGCTC
3' ss Score
8.34
Exon sequences
Seq C1 exon
CACATGATGGCGAAGACGGTGCGCATCCTGCAGCGCTGCCGGGGCCAGGCACACG
Seq A exon
GTGAGTGGGGCAGGGAGTGGGGCTGGGGGCGTCGTGGGGCTGGGGGGCCCATCACTCAGCTCCTGCTTTCTGTATGCCCCCAG
Seq C2 exon
CTCCGCTGTCCCCGCTGCGGAATCGCTCCCCACACCGACCAGAGGATGCCAGGGCCATCAGGATCAGCACAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006348:ENSGALT00000010260:25
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=0.640
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=PD(0.5=5.3)
A:
NA
C2:
NO
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:
CACATGATGGCGAAGACGGTG
R:
ATGTGCTGATCCTGATGGCCC
Band lengths:
127-210
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]