HsaINT0137019 @ hg19
Intron Retention
Gene
ENSG00000136828 | RALGPS1
Description
Ral GEF with PH domain and SH3 binding motif 1 [Source:HGNC Symbol;Acc:16851]
Coordinates
chr9:129974906-129975328:+
Coord C1 exon
chr9:129974906-129974998
Coord A exon
chr9:129974999-129975222
Coord C2 exon
chr9:129975223-129975328
Length
224 bp
Sequences
Splice sites
5' ss Seq
CACGTAAGT
5' ss Score
10.16
3' ss Seq
GTGTTGTTGCTCTCCTCCAGTAT
3' ss Score
8.75
Exon sequences
Seq C1 exon
CTGTCCTCGTGGACCAGGTACTGGGTCATACTCTCAGGATCCACCCTCCTGTACTACGGAGCCAAGTCCTTGCGGGGCACAGACAGAAAACAC
Seq A exon
GTAAGTCCCTTGAAAGGACTCTAGTGCTGGGACTTCCTCTAGTGGGGAAGGGACCTCTGTGAACTGTGGAGGATGGGGGTGGGAAAGGGATCTGTGTGAACTGCGGAGGATGCAGGTGGGAAGGCGGCAGGGGAGGGAGGAAGCCTTGCCTGGCCCACGTCGGCCTCCCTTGTGGAGTGGAGGGCTGGGCCCCGGTCTCCGGATGTGTTGTTGCTCTCCTCCAG
Seq C2 exon
TATAAATCCACACCTGGCAAAAAGGTTTCCATCGTGGGCTGGATGGTGCAGCTGCCCGATGACCCCGAGCACCCAGATATCTTCCAGCTGAACAACCCTGACAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136828-RALGPS1:NM_001190729:15
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.070 A=NA C2=0.268
Domain overlap (PFAM):
C1:
PF0016924=PH=FE(26.8=100)
A:
NA
C2:
PF0016924=PH=FE(31.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCTCGTGGACCAGGTACT
R:
CTTTGTCAGGGTTGTTCAGCTG
Band lengths:
196-420
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)