HsaINT0071936 @ hg19
Intron Retention
Gene
ENSG00000160360 | GPSM1
Description
G-protein signaling modulator 1 [Source:HGNC Symbol;Acc:17858]
Coordinates
chr9:139233012-139234272:+
Coord C1 exon
chr9:139233012-139233167
Coord A exon
chr9:139233168-139234163
Coord C2 exon
chr9:139234164-139234272
Length
996 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGT
5' ss Score
9.73
3' ss Seq
CTGGTCTCCCTCTCTGGCAGAGT
3' ss Score
8.6
Exon sequences
Seq C1 exon
GAAGACGCTGCAACTGTCTCGGCAGCTCAGGGACCAGGCAGTGGAGGCGCAGGCCTGCTACAGTCTGGGCAACACCTACACGCTGCTGCAGGACTACGAGCGCGCGGCCGAGTACCACCTGCGGCACCTGCTCATTGCCCAGGAGCTGGCCGACAG
Seq A exon
GTGCGTGGGCGCGGACGCGGCGGGCAGACCCGGCCCGGCCCACAGGCTGAATTACCGCGGCCCAGGCGAGGTGGCCTGGGTCCCATCCCCTGCTCTGCCACTGACCATGCTGTGACCCAGGAGTGGCAACGCCACTGTGGGGACTGAGCCAGACAGTGTGGACATTGGGCCGGCCACTGACCCCTGGCACAAGCGGGTGGGGTCCCCCTCCCATCCCTCAATTCGCCACCCTGTTGCCCCCACCACCCATGTATGTATGTAAATATCACTCTCTGGAGAGAGACAGGCTGGCAAACCACAGGCCCCTAAGTACTGTCTTGTGTGCAGGTCTGGGGTGGGTGGTGGCCGGAACAAGGGGCTCAGAGCCACAGGCCTGTGGCCTTTCACAGGCAGCAGAGAGGAGAGGTCTTTTGAAAGGCTGCCCTGCCTGGAGGCTTAAAAGTGGCCCAAGGTTTTCCTTTGTGGCGTGGTGAGGAGAATGTTCTGGAATAGACAGAGGTGCCGGTTGCACAGCATGAATGTACAAAATGCCAGTGGATCGTCCACGTGAAAATGATCAAATTCCTGTTAGACGCATTTCCCTCCAATATAAAAACAACCCCCTCACCCAGTGACTTGGAGGGTGCCCGTAAGGGTGGAGGGAGTGCAAGGGAGGAGGCTTGCCGGCCGCCAGGGGGCGAGCGAGGCCAAGGGCCCAGAAACTGCCCGCAAAGGCAGAGCCGGCCACAGGCCAGGTTGCTTGGACTCTGCGCTAATCCTTTTAATGGGAAGGAAAAAGGCAGAGCTGATTGGGGCTTATGCTTGAAGGTGGCAGAATTTGTGGGAGGTCCAGCTGGGGGCATTATCCTGTCATCCGGCCAATGCCCCTTGGGCCTGGGGGCCCCTGATGACCCTCGAAGCCAGGGTCATGCTGGGGCCGTGACCACCAGGGGAGGGGCTGGGGCTGGGGGCTGGCCTGGAGAGGGCGGGTATGAATCTGGTCTCCCTCTCTGGCAG
Seq C2 exon
AGTGGGCGAGGGCCGGGCGTGCTGGAGCCTGGGAAATGCCTACGTGTCCATGGGGCGCCCAGCGCAGGCCCTGACCTTCGCCAAGAAGCACCTGCAGATCTCCCAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000160360-GPSM1:NM_015597:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134241=TPR_12=PD(60.8=90.6)
A:
NA
C2:
PF134241=TPR_12=PU(53.1=91.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGACGCTGCAACTGTCTCG
R:
CTCCTGGGAGATCTGCAGGTG
Band lengths:
265-1261
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)