DreINT0124569 @ danRer10
Intron Retention
Gene
ENSDARG00000079872 | rapgef4
Description
Rap guanine nucleotide exchange factor (GEF) 4 [Source:ZFIN;Acc:ZDB-GENE-070912-385]
Coordinates
chr9:2955309-2955500:-
Coord C1 exon
chr9:2955470-2955500
Coord A exon
chr9:2955388-2955469
Coord C2 exon
chr9:2955309-2955387
Length
82 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
CTTTCTCTCGCTTATTTCAGCAC
3' ss Score
9.81
Exon sequences
Seq C1 exon
CTCAGATGACGGCAGACCCTCTCAGAAAAAG
Seq A exon
GTGAGAGGAAAGAAAGAGCATTTTCTGTGGCGTTTGCTGAATCTGTGTGATGTGATAGTCCTCTTTCTCTCGCTTATTTCAG
Seq C2 exon
CACAAAGTCCTGCTGCGTCAGTTCAGCACAGGGAACGACAGGCTTCAGAAGAGACAGCCCATCAAAAGCACAGACGAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079872:ENSDART00000144046:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.879 A=NA C2=0.358
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0078818=RA=PU(4.7=7.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGATGACGGCAGACCCTCTC
R:
TCGTCTGTGCTTTTGATGGGC
Band lengths:
105-187
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]