HsaINT0139887 @ hg19
Intron Retention
Gene
ENSG00000205517 | RGL3
Description
ral guanine nucleotide dissociation stimulator-like 3 [Source:HGNC Symbol;Acc:30282]
Coordinates
chr19:11510531-11510784:-
Coord C1 exon
chr19:11510716-11510784
Coord A exon
chr19:11510646-11510715
Coord C2 exon
chr19:11510531-11510645
Length
70 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
GCACAGCCACCCCACCTCAGCCT
3' ss Score
-1.05
Exon sequences
Seq C1 exon
GAAGCTTGCCCGAGAGAAAAGCTCATCACCTAGTGGGAGTCCCGGGGACCCCTCATCCCCCACCTCCAG
Seq A exon
GTGAGCATTCTGCTTGGTGATGGGACTGGGGATCATGGGATCAGGAGTCAGCACAGCCACCCCACCTCAG
Seq C2 exon
CCTCTGCATCTCCCCCAGTGTGTCCCCAGGGTCACCCCCCTCAAGTCCTAGAAGCAGAGATGCTCCTGCTGGCAGTCCCCCGGCCTCTCCAGGGCCCCAGGGCCCCAGCACCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000205517-RGL3:NM_001161616:15
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
NA
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGCTTGCCCGAGAGAAAAGC
R:
CTGCCAGCAGGAGCATCTCT
Band lengths:
143-213
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)