HsaINT0139891 @ hg19
Intron Retention
Gene
ENSG00000205517 | RGL3
Description
ral guanine nucleotide dissociation stimulator-like 3 [Source:HGNC Symbol;Acc:30282]
Coordinates
chr19:11527288-11527733:-
Coord C1 exon
chr19:11527510-11527733
Coord A exon
chr19:11527342-11527509
Coord C2 exon
chr19:11527288-11527341
Length
168 bp
Sequences
Splice sites
5' ss Seq
CGGGTCAGT
5' ss Score
6.55
3' ss Seq
GCTGGGGGGCCTCTTCCCAGGGT
3' ss Score
3.73
Exon sequences
Seq C1 exon
GCTCCCAGCCCCATTGCCAATACCTTCCTCCACTATCGAACCAGCAAGGTGAGGGTGCTGAGGGCAGCGCGCCTGGAGCGGCTGGTGGGAGAGTTGGTGTTTGGAGACCGTGAGCAGGACCCCAGCTTCATGCCCGCCTTCCTGGCCACCTACCGGACCTTTGTACCCACTGCCTGCCTGCTGGGCTTTCTGCTGCCACCAATGCCACCGCCCCCACCTCCCGG
Seq A exon
GTCAGTAGCGAACCATAACCTCCGTATTCTCCACCCTAGAACCCCAACTGGGCACCCCCCTCCACCTCCTCAGGTGTGGAACCTGGAAACACCTCCCAGACCCAGAGCCCTCTTCCTAAGCCCCCTCTAGGTTCCCCCTTCTTCACCTGCTGGGGGGCCTCTTCCCAG
Seq C2 exon
GGTAGAGATCAAGAAGACAGCGGTACAAGATCTGAGCTTCAACAAGAACCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000205517-RGL3:NM_001161616:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.300 A=NA C2=0.466
Domain overlap (PFAM):
C1:
PF0061815=RasGEF_N=PU(52.3=74.7)
A:
NA
C2:
PF0061815=RasGEF_N=FE(16.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
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:
CAGCCCCATTGCCAATACCTT
R:
GCTCAGATCTTGTACCGCTGT
Band lengths:
256-424
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)