RnoINT0124240 @ rn6
Intron Retention
Gene
ENSRNOG00000059961 | Rapgef3
Description
Rap guanine nucleotide exchange factor 3 [Source:RGD Symbol;Acc:621869]
Coordinates
chr7:139234323-139234543:-
Coord C1 exon
chr7:139234489-139234543
Coord A exon
chr7:139234395-139234488
Coord C2 exon
chr7:139234323-139234394
Length
94 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGA
5' ss Score
10.1
3' ss Seq
CCCTCTCTCTCTCTGCCCAGCGC
3' ss Score
10.77
Exon sequences
Seq C1 exon
CGAATGATGGCCAGAGCCGTGCGGATGCTCCACCACTGCCGAAGCCACAGCACCG
Seq A exon
GTAAGAGGTGGTCTCCTGGGCGGGAGCCCCTCAGCACCCCCGCGGAGGCTCTGCGTGGCCGTCTCCCTGACTCTCCCTCTCTCTCTCTGCCCAG
Seq C2 exon
CGCCTCTATCACCACTCAGAAGCCGGGTTTCCCACATCCACGAGGACAGCCAGGCATCAAGAATCTCCACAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000059961:ENSRNOT00000078644:25
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=0.400
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=PD(0.5=5.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAGCCGTGCGGATGCTC
R:
TGGAGATTCTTGATGCCTGGC
Band lengths:
112-206
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]