DreINT0124568 @ danRer10
Intron Retention
Gene
ENSDARG00000079872 | rapgef4
Description
Rap guanine nucleotide exchange factor (GEF) 4 [Source:ZFIN;Acc:ZDB-GENE-070912-385]
Coordinates
chr9:2955470-2955667:-
Coord C1 exon
chr9:2955579-2955667
Coord A exon
chr9:2955501-2955578
Coord C2 exon
chr9:2955470-2955500
Length
78 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGA
5' ss Score
6.42
3' ss Seq
TCACGACCCTTTATTCGCAGCTC
3' ss Score
6.38
Exon sequences
Seq C1 exon
GAGTTTTATGAGATGGTGTGTGAAGACTCCAGGCTCACTCCAGCCCTGAAGGACCATCTGCCCGAACTGGAGAAGATCATCAAGCAGAA
Seq A exon
GTAAGAGCTCACAGATCTGAGGTCATTTTAACACGTTTCCTTTGAGCATATTCATGAGTCACGACCCTTTATTCGCAG
Seq C2 exon
CTCAGATGACGGCAGACCCTCTCAGAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079872:ENSDART00000144046:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.178 A=NA C2=0.879
Domain overlap (PFAM):
C1:
PF0061815=RasGEF_N=PD(0.9=3.3)
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:
GAGTTTTATGAGATGGTGTGTGAAGA
R:
TTTTTCTGAGAGGGTCTGCCG
Band lengths:
119-197
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]