DreINT0017715 @ danRer10
Intron Retention
Gene
ENSDARG00000075924 | RAPGEF4 (1 of 2)
Description
Rap guanine nucleotide exchange factor (GEF) 4 [Source:HGNC Symbol;Acc:HGNC:16626]
Coordinates
chr6:6759104-6759330:+
Coord C1 exon
chr6:6759104-6759154
Coord A exon
chr6:6759155-6759242
Coord C2 exon
chr6:6759243-6759330
Length
88 bp
Sequences
Splice sites
5' ss Seq
CTAGTGAGT
5' ss Score
7.43
3' ss Seq
GATTCATCTGTCGCTCGCAGGAT
3' ss Score
9.03
Exon sequences
Seq C1 exon
AAACTGCCTAGTAAATTTAAGAAGTTCTACGCAGAGTTTGAGAGTTTACTA
Seq A exon
GTGAGTCAGATATTTTACATTTCATCTCTCTCTAAGGAAATTATATTTTTGTGTTTGATTTTGAATATGATTCATCTGTCGCTCGCAG
Seq C2 exon
GATCCATCTAGGAATCATCGTGCTTACCGCCTCACTGTGGCCAAGATGGAGCCGCCAATCATTCCCTTTATGCCCCTCCTCATTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000075924:ENSDART00000166607:26
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=0.000
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=FE(8.6=100)
A:
NA
C2:
PF0061714=RasGEF=FE(15.7=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:
AAATTTAAGAAGTTCTACGCAGAGT
R:
CTTTAATGAGGAGGGGCATAAAGGG
Band lengths:
127-215
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]