GgaINT0000945 @ galGal3
Intron Retention
Gene
ENSGALG00000006348 | RAPGEF3
Description
NA
Coordinates
chrE22C19W28_E50C23:456095-456306:+
Coord C1 exon
chrE22C19W28_E50C23:456095-456149
Coord A exon
chrE22C19W28_E50C23:456150-456232
Coord C2 exon
chrE22C19W28_E50C23:456233-456306
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
CTCCGCTGTCCCCGCTGCGGAATCGCTCCCCACACCGACCAGAGGATGCCAGGGCCATCAGGATCAGCACATGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006348:ENSGALT00000010260:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
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:
ACATGTGCTGATCCTGATGGC
Band lengths:
129-212
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]