DreINT0126421 @ danRer10
Intron Retention
Gene
ENSDARG00000005989 | rgl1
Description
ral guanine nucleotide dissociation stimulator-like 1 [Source:ZFIN;Acc:ZDB-GENE-040426-1816]
Coordinates
chr8:19264145-19264594:-
Coord C1 exon
chr8:19264510-19264594
Coord A exon
chr8:19264235-19264509
Coord C2 exon
chr8:19264145-19264234
Length
275 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGC
5' ss Score
7.75
3' ss Seq
CTTTTATCTGATATTTACAGGAG
3' ss Score
7.46
Exon sequences
Seq C1 exon
AGACAGCATGCAGATGTTTGAAGAGCTTTCTGACATTTTCTCCGACCAAAATAATTACCTTACAAGCCGGGAGCTGCTAATGAGG
Seq A exon
GTGAGCTCACACACGTCTCTCGGTCTCAGTTGTGGTTTTGTTGTGTTTTCTTTGCACAAAGTTTTTCCTTAGTTAGCTTTCATTAACAATTTGGCTATTGTTAAATTAGATTGACATCATTGTAATCTAGCAAAGTCTTCATTTAGCTCAGTTTAACCAATTTCACTGTCAAATTTTTTAATTATTTTCCTCTAAAATGAGCATGGAGATGTGGAAAAATATACGATTTCCCGCCGTCTTTTTAAAAACAAAATACTTTTATCTGATATTTACAG
Seq C2 exon
GAGGGCACTTCAAAGTTTGCCAGTCTGGACAGCTGTGCCAAAGACCACCAAAAAAGGTCACAAAAGAGACTTCAGTTACAAAAAGATATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000005989:ENSDART00000138881:9
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=0.133
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=FE(12.6=100)
A:
NA
C2:
PF0061714=RasGEF=FE(13.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGCATGCAGATGTTTGAAGA
R:
TTGTAACTGAAGTCTCTTTTGTGACC
Band lengths:
164-439
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]