HsaINT0137004 @ hg19
Intron Retention
Gene
ENSG00000160271 | RALGDS
Description
ral guanine nucleotide dissociation stimulator [Source:HGNC Symbol;Acc:9842]
Coordinates
chr9:135976907-135977526:-
Coord C1 exon
chr9:135977325-135977526
Coord A exon
chr9:135977150-135977324
Coord C2 exon
chr9:135976907-135977149
Length
175 bp
Sequences
Splice sites
5' ss Seq
AAGGTGACT
5' ss Score
6.64
3' ss Seq
GATCTTACCGTCTCCCTCAGTTC
3' ss Score
7.37
Exon sequences
Seq C1 exon
CCGCCAGGCCCCCAGCACTGAGCTCAGTACCAGTGGCAGCTCCCACTCCAAGTCCTGTGACCAGCTCAGGTGTGGCCCCTACCTCAGCAGCGGGGACATCGCTGACGCGCTCAGCGTGCACTCGGCCGGCTCCTCTAGCTCCGACGTGGAGGAGATCAACATCAGCTTCGTCCCGGAGTCTCCTGATGGCCAGGAAAAGAAG
Seq A exon
GTGACTGCCTGCCCTTCTCCCCAATATCCTTTCCCATCTCCCCACTCCAAATCCATGCATGGGGCCAGGAAGCCCTGGATCCTGAACACAGCTTCTAGAAGGTTCCCCATCTGGCAGCTGGCCTGGGGTGCCCCCACAGGGCAGTGGGATCTGCTGATCTTACCGTCTCCCTCAG
Seq C2 exon
TTCTGGGAATCAGCCTCACAGTCATCCCCGGAGACCTCCGGCATCAGCTCAGCCTCCAGCAGCACCTCGTCCTCCTCAGCCTCCACCACGCCCGTGGCTGCCACACGCACCCACAAGCGCTCTGTCTCAGGGCTCTGCAACTCCAGCTCCGCGCTGCCGCTCTACAACCAGCAGGTGGGCGACTGCTGTATCATCCGCGTCAGCCTGGACGTGGACAATGGCAACATGTACAAGAGCATCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000160271-RALGDS:NM_006266:15
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.377 A=NA C2=0.478
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0078818=RA=PU(22.7=24.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCAACATCAGCTTCGTCCCG
R:
GATGATACAGCAGTCGCCCAC
Band lengths:
243-418
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)