HsaINT0137007 @ hg19
Intron Retention
Gene
ENSG00000160271 | RALGDS
Description
ral guanine nucleotide dissociation stimulator [Source:HGNC Symbol;Acc:9842]
Coordinates
chr9:135985683-135987539:-
Coord C1 exon
chr9:135987429-135987539
Coord A exon
chr9:135985877-135987428
Coord C2 exon
chr9:135985683-135985876
Length
1552 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGT
5' ss Score
7.93
3' ss Seq
CCTCCTCTGTCCCACCCCAGTAT
3' ss Score
7.89
Exon sequences
Seq C1 exon
AGCTCCACGCAGGAGATCGGTGAGGAGCTGATCAACGGAGTCATCTACTCCATCTCCCTGCGCAAGGTGCAGCTGCACCACGGAGGCAACAAGGGGCAGCGCTGGCTCGGG
Seq A exon
GTGAGTGCGCTCGGGGTCTCCACTGGGAGACGCAGCTGGGGATCCCTCCCAGGACTTTTTCACTTGAGGGCCCCCAGTTCTGATCCCAAAGGAAACGGCCTTCACTCCCTTCCCGACCCCCACTGTCCAGCCCAGGCTTAATCGGGTTTTCATGTTTGACCTCCCTTCCCCGGGTGTGCAGCCATCAGCCTCACCATCCTCCATGCCTTCTCCCAGATGTGCACACCATCTGGAGTAGTGGGGCTGTCTTCACCCAAGGACAAAAGGGCTTCAGGCTGTTAGGTCTCTGCAAGTTGCCATCTCCCAGAACACATCCCTGGGGTTCCTCCAGGTTGAGAGCCGGGGCCTGACTCAGCTGCATAATATTCCAGAAGGGAGGCTGGAGCCACTGCCCCAGTTCAGCTCCTCATGACTGTGGGGCCACTGTGAGTCCTCTGAGGACACTTCAACAGTGCTGCAGGAGCCAGGCGCAGTGGCTCATGCCTGTAATCCCAGCATTTTGGGAGGCCAAGGCAGGAGGATTGCCTAAGGTCAGGAGTTTGAGACCAGCCTGGCCCACATGGTGAAACCCCATCTCTACTAAAAATACAAAAATTAGCCAAGCATGGTGGTGTGTGCCTGTAATCCCAACTACTTGGGAGGCTGAGACATGAGAATTGCTTCAGCCCAGGAGGCTGAGGTTGCAGTGAGCCGAGATCACACCACTGCACTCTAGCCTGGGTGACTGTCTCAAAACAAAACAAAACAGTGCCACGGGGAAGATGCTGTGCGTCCTAACGGGCCAGTCCCTCCCAGCCCCTGGATAAGCCTCTGTTTCCTCATCTCTAGAATGGGGATATTTTGTTAGAGCTCTCAGATGACGCTCTTCCCACAGGGCAGCTACCATTACTCAGCTAACAACGGACCTGAAGGTGTCAGTATTTAAATCATTCCCGCACCTCAAATTCTACTTTAAAAATTTTTTCACTCTTTTAGAGACAGGGTCTCACTCTGTCACCCAGGCTGCCATGCAGAGGTATGATCATAGCTCACAGCAGCCTTGACCTCCTGGGCTCAAGCGATCTTCTCACCTCAGTTCCCCAGGTAGCTGGGACCACCACACCTGGCTAATTTTGTATTTTTTGTAGAGATGGGGTTTTGCCATGTTGCCCAGGCTGGTCTCAAACTCCTGGGCTCAAGCAATTTGCCCACCTCAGCCTCCCAAAATGCTGGGATGACAGGCGTAAGCTACTATGCCTGGCCCTGGCTAATTTTTAAGTTTTGTAAACAATTTTTTTGTAGAGCTGGGGGATTTCACTTTGTTGCCCAGGCTGGTCTCAAACTCTTGGCTTCAAGTGATGCTCCCACCTTGGCCTCCCAAAGTGCCGGGATGACTGATGTGAGCCACCACACCTGGCCTGAAATTCTACTTTTAAAGCTGATAACCTTTTTCTGCTAGAGATACTCAGTCCTGCCTCTTGCCACAAGCTGCTGAGGGCTCGGGGTTCCATCTGAGCTCCAGGAGATTCGTGTGCTGCCACTGACTGTCTGTCCCTCCTCTGTCCCACCCCAG
Seq C2 exon
TATGAGAATGAGTCGGCCCTGAACCTTTATGAGACTTGCAAGGTGCGGACCGTGAAGGCTGGCACGCTGGAGAAGCTGGTGGAGCACCTGGTGCCAGCCTTCCAGGGCAGCGACCTCTCCTACGTCACCATCTTCCTGTGTACCTATAGAGCCTTCACCACCACCCAACAGGTCCTGGACCTGCTGTTCAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000160271-RALGDS:NM_006266:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.088 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0061815=RasGEF_N=PU(47.5=73.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCACGCAGGAGATCGGTG
R:
CTTTTGAACAGCAGGTCCAGGA
Band lengths:
302-1854
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)