HsaINT0139882 @ hg19
Intron Retention
Gene
ENSG00000205517 | RGL3
Description
ral guanine nucleotide dissociation stimulator-like 3 [Source:HGNC Symbol;Acc:30282]
Coordinates
chr19:11513131-11513382:-
Coord C1 exon
chr19:11513326-11513382
Coord A exon
chr19:11513218-11513325
Coord C2 exon
chr19:11513131-11513217
Length
108 bp
Sequences
Splice sites
5' ss Seq
TCAGTGAGT
5' ss Score
7.68
3' ss Seq
TGGAGCTTTGGGGGCTGCAGAAA
3' ss Score
1.01
Exon sequences
Seq C1 exon
GAGGAGGCCACTGAGGGATCCCAAGAAGAGGACAACACCCCAGGCAGCCTGCCCTCA
Seq A exon
GTGAGTGATTACAGTTTGGGATGGGGACAAGTGGGACCTTCAGGGAGGGTTGTGGATGGTGATGGGGTCAGTAATGGCCCCAAGTGACTGGAGCTTTGGGGGCTGCAG
Seq C2 exon
AAACCACCCCCAGGCCCTGTCCCCTACCTTGGCACCTTCCTTACGGACCTGGTTATGCTGGACACAGCCCTGCCGGATATGTTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000205517-RGL3:NM_001161616:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.207
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=FE(8.5=100)
A:
NA
C2:
PF0061714=RasGEF=FE(13.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCACTGAGGGATCCCAAGAA
R:
CTCCAACATATCCGGCAGGG
Band lengths:
138-246
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)