HsaINT0137005 @ hg19
Intron Retention
Gene
ENSG00000160271 | RALGDS
Description
ral guanine nucleotide dissociation stimulator [Source:HGNC Symbol;Acc:9842]
Coordinates
chr9:135975655-135977149:-
Coord C1 exon
chr9:135976907-135977149
Coord A exon
chr9:135975770-135976906
Coord C2 exon
chr9:135975655-135975769
Length
1137 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGC
5' ss Score
8.69
3' ss Seq
CATCCCCCGCCGCGATGCAGGTG
3' ss Score
6.12
Exon sequences
Seq C1 exon
TTCTGGGAATCAGCCTCACAGTCATCCCCGGAGACCTCCGGCATCAGCTCAGCCTCCAGCAGCACCTCGTCCTCCTCAGCCTCCACCACGCCCGTGGCTGCCACACGCACCCACAAGCGCTCTGTCTCAGGGCTCTGCAACTCCAGCTCCGCGCTGCCGCTCTACAACCAGCAGGTGGGCGACTGCTGTATCATCCGCGTCAGCCTGGACGTGGACAATGGCAACATGTACAAGAGCATCCTG
Seq A exon
GTAAGCCGGCGGGGGTGGCCTGGGTGCCTCCCTCCACTGGCGGCAAATGCACCCTGAACACAGTGCACCATCCCTGCCCTCCCGGGGTCTACCTTGTAGTTGGCGGGGAAGGACAGATGTCAGCCAGGTACAGAAATGAAGAAGGTAGTGATCAGGGACAAGGCTGGCCTGAGGGCAGAGGGGGAGGAAAGGAGCAGCCGTGCAAAGCCCCCAGGAGCTGAAGGGGCGGTGCTGTAGGGGAGGTGAGGTCAGGGAAGTATCCAGGGCCTGGCCACATAGGCCCTGAGCCCTGCCAGGACCTCGACTTTCTCGGGGAGGAAGACAGGAGCAATGATGGCTGGCTTCTCTGTCTGGTGTGGGCTGGTACCAGAGCCGCAGGGGTGTTGGTTAGGAGGCCGCTGTGGCAACCAGGCTGGGAGCCCTGGAAGGGGCCAGCAGGGTCAGAGTCTAGACAGGATTTGGAGACAGCAGATGGGAATTGCTCACAGAATGGGTTTGCCTGGGGGCTCTTTCTTCATCCTCCAGGTGTCCTGCGACAGATGAACCATTTGTAACCCCCACCCTCTGTACCCCAGCCCTGGGTCAGGTGCCCCATTATTCACACACGCTCCTGACCCCTCATTGCCAGGAGCTAGCATGGTTGTCATTAAGCAGTCACCTGTGGCCCTATGTCCGAGTTCCGCCTGTGCTCTGGCCCTCAGGGTCAAGGTAGCAGGGGCCTGGCCTATGCTGACCACACTGAGCATCCTGGCCGGCCCCTCCTTTCTTACCTCCAGGGCTTGGACTAGGGACTGTCTGTTCCCCAGGCTCAGTGATGCTGTTATCCTGGAGGGGCAAGTGCTTCTCAAGGAAGTGTGGGAGGAGGGAACAGTCTCTTACAGGAGAAGCAGGGTAGGCACTGCTGGGACAGACCCCTCCTCATTCCATGGAGGCCTCACATGGGGAACAGAAGGACGGAGGCCTCACTTGGGGAGTAGGAGAATGTGACAAGGCCCTCTCCGGACCCAGCACCTGGCCAGAGGCTGTGAGTGCCTGTGCTTGGTGCTGAGGGGACTCCAGAGGGTCCTTGGCCACTGCACTCTGGGGGAGCCGCTCCAGGGTCTTTTCCCTGATGGTCCATCCCCCGCCGCGATGCAG
Seq C2 exon
GTGACCAGCCAAGATAAGGCTCCGGCTGTAATCCGCAAGGCCATGGACAAACACAACCTGGAGGAGGAGGAGCCGGAGGACTATGAGCTGCTGCAGATTCTCTCAGATGACCGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000160271-RALGDS:NM_006266:16
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.478 A=NA C2=0.402
Domain overlap (PFAM):
C1:
PF0078818=RA=PU(22.7=24.7)
A:
NA
C2:
PF0078818=RA=FE(43.2=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:
TGGGAATCAGCCTCACAGTCA
R:
GAGAGAATCTGCAGCAGCTCA
Band lengths:
344-1481
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)