HsaINT0137011 @ hg19
Intron Retention
Gene
ENSG00000160271 | RALGDS
Description
ral guanine nucleotide dissociation stimulator [Source:HGNC Symbol;Acc:9842]
Coordinates
chr9:135982472-135983793:-
Coord C1 exon
chr9:135983375-135983793
Coord A exon
chr9:135982688-135983374
Coord C2 exon
chr9:135982472-135982687
Length
687 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGC
5' ss Score
8.02
3' ss Seq
ACATTTAGCCTCCTCCCCAGGAA
3' ss Score
5.38
Exon sequences
Seq C1 exon
CTCTGTCACCAGTGCCAGCTCTAAAACCAACTCCAGAGCTCGAGCTAGCTCTAACACCAGCTCGAGCACCCAGCCCAGTGCCGGCTCCAGCCCCGGAGCCAGAGCCAGCTCCAACACCAGCTCCAGGTTCAGAGCTAGAAGTAGCTCCAGCACCAGCTCCGGAGCTCCAGCAGGCTCCAGAGCCAGCTGTGGGACTAGAATCGGCTCCAGCGCCAGCTCTGGAACTAGAGCCAGCTCCAGAACAGGATCCAGCTCCCTCACAAACTCTAGAGCTGGAGCCAGCTCCAGCACCAGTTCCATCATTACAGCCTTCCTGGCCTTCACCTGTGGTTGCAGAGAACGGGCTGAGTGAGGAGAAGCCTCACCTCTTGGTGTTCCCTCCAGATCTGGTGGCAGAGCAGTTTACACTGATGGATGCG
Seq A exon
GTGAGCAGCTCAGCTTGGCAGGGCAGGGGTGGGCCTGCCTTCTGGCAGCATCTGCTGTCCCAGACCTACCATTTGCTGATCCAGAGCTGATGTTCTGGTCAAATCCCAGCTCTGCTGCTACACACCAAGTAACCAGGTCGTTCCTTAACCCCAAGTCCTCAGTTTACCTCTGGACAGTAGAGATGAGGTCACCCCTATCCTCCAGAGTGACTGTGCAGATTCTAGATGGAACAGACAGGAAGCTCAGCAGGCCTGGCCTGTGGGAGCGGAGGGTGCTCACCAAGGTGCATCCATGGGTCACCCCCATCTGTTCAGGAGGCTCACCAGCCTCAGCACTCATTAGGCACTTGGTGTGTCCTGGAGCCTATGGCAGACACTGGACAAAGCCCTTAGTTGTAGCGCCCACAGCAGATGTGCGTCTGGATGGGGAGCAGACTGAGGCGGGGGGATGGGGGGTGGGCAGGCGTGAGCCGCCTGTTGGAGCTGGGGCTTGGTGAGGCTGCGCGAGGCGGTGCTCCTCTTCTTCCCACCAGCGTTCTGTCCCGGGTCACTTGTGTGCTGGGCACCCTGCATGGACACGGGATAAAACCCAGAGATCCCCACAAGGCTCAAGCTGCATCCTCAGCTTCCCCAGCACCAGCCCAGACTGCTGGGGCAGGACCAGGTGACATTTAGCCTCCTCCCCAG
Seq C2 exon
GAACTGTTCAAGAAGGTGGTGCCCTACCACTGCCTGGGCTCCATCTGGTCCCAGCGGGACAAGAAGGGCAAGGAGCACCTGGCGCCCACCATCCGCGCCACTGTCACCCAGTTCAACAGTGTGGCCAACTGTGTCATCACCACCTGCCTCGGGAACCGAAGCACGAAAGCCCCAGACAGGGCCAGGGTGGTGGAGCACTGGATCGAGGTGGCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000160271-RALGDS:NM_006266:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.849 A=NA C2=0.014
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=PU(10.0=11.4)
A:
NA
C2:
PF0061714=RasGEF=FE(33.0=100)
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:
TGGGACTAGAATCGGCTCCAG
R:
TTGGCCACACTGTTGAACTGG
Band lengths:
358-1045
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)