HsaINT0071946 @ hg19
Intron Retention
Gene
ENSG00000121957 | GPSM2
Description
G-protein signaling modulator 2 [Source:HGNC Symbol;Acc:29501]
Coordinates
chr1:109441264-109441616:+
Coord C1 exon
chr1:109441264-109441387
Coord A exon
chr1:109441388-109441500
Coord C2 exon
chr1:109441501-109441616
Length
113 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAG
5' ss Score
8.68
3' ss Seq
ATTAAAATTGTTTGTTTCAGCGT
3' ss Score
7.62
Exon sequences
Seq C1 exon
GGAAAACCTATCATTAGTGACTGCTTTGGGTGACCGAGCGGCACAAGGACGTGCCTTTGGAAATCTTGGAAACACACATTACCTCCTTGGCAACTTCAGGGATGCAGTTATAGCTCATGAGCAG
Seq A exon
GTACAGTGGAAAGCCTTGGAGCCAGATCATTTCCTCCATCAAAGTTCTGAACAGTGATTAGATCATTCTTCAGTTTTATTTTATCTACATCTAATTAAAATTGTTTGTTTCAG
Seq C2 exon
CGTCTCCTTATTGCAAAAGAATTTGGAGATAAAGCAGCTGAAAGAAGAGCATATAGCAACCTTGGAAATGCATATATATTTCTTGGTGAATTTGAAACTGCCTCGGAATACTACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000121957-GPSM2:NM_013296:6
Average complexity
IR-C
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=FE(68.3=100)
A:
NA
C2:
PF134241=TPR_12=PD(10.0=15.4),PF134241=TPR_12=PU(37.2=74.4)
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:
ACCTATCATTAGTGACTGCTTTGGG
R:
TGTAGTATTCCGAGGCAGTTTCA
Band lengths:
234-347
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)