HsaINT0139884 @ hg19
Intron Retention
Gene
ENSG00000205517 | RGL3
Description
ral guanine nucleotide dissociation stimulator-like 3 [Source:HGNC Symbol;Acc:30282]
Coordinates
chr19:11512687-11512923:-
Coord C1 exon
chr19:11512891-11512923
Coord A exon
chr19:11512809-11512890
Coord C2 exon
chr19:11512687-11512808
Length
82 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CTTAGAGGCTCGTCCTCCAGGAG
3' ss Score
3.65
Exon sequences
Seq C1 exon
GGGGATCTCATTAACTTTGAGAAGAGGAGGAAG
Seq A exon
GTGAGTGGAGGCTACAGTGGGTGTGGTGGTGCCTGAGGGTGGGGGTGGGGCAGGGGTAGGGTCTTAGAGGCTCGTCCTCCAG
Seq C2 exon
GAGTGGGAGATCCTGGCCCGCATCCAGCAGCTGCAGAGGCGCTGTCAGAGCTACACCCTGAGCCCCCACCCGCCCATCCTGGCTGCCCTGCATGCCCAGAACCAGCTCACCGAGGAGCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000205517-RGL3:NM_001161616:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=0.091 A=NA C2=0.610
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=FE(4.7=100)
A:
NA
C2:
NO
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:
TCTCATTAACTTTGAGAAGAGGAGGA
R:
CTCCTCGGTGAGCTGGTTCT
Band lengths:
145-227
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)