HsaINT0071941 @ hg19
Intron Retention
Gene
ENSG00000121957 | GPSM2
Description
G-protein signaling modulator 2 [Source:HGNC Symbol;Acc:29501]
Coordinates
chr1:109465039-109466836:+
Coord C1 exon
chr1:109465039-109465198
Coord A exon
chr1:109465199-109466621
Coord C2 exon
chr1:109466622-109466836
Length
1423 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
CTTTCTTCTTCTGTTCTTAGCAT
3' ss Score
9.63
Exon sequences
Seq C1 exon
AAAATCAGTGCAGATACTATTGGAGATGAAGGGTTCTTTGACTTATTAAGCCGATTTCAAAGCAATAGGATGGATGATCAGAGATGTTGCTTACAAGAAAAGAACTGCCATACAGCTTCAACAACAACTTCTTCCACTCCCCCTAAAATGATGCTAAAAA
Seq A exon
GTAAGTCATCTCTGTTTCTCCCCCGATTTTAATAGTTCTCTTTGATATTCTTGTGGCTTATTTCTGAGAATTGAATTCCCATCATAAGAGATATAATAAATGAGCCTGAATTCAGGTATATCTGAAATGCTGTTATTTATACAGTTCAAACAAGGTTTTTTCAGTTCCCTTACGTATATCTGTGTTTTTAGTCCAATGTGCTTTCTACTAACTATATTATACTACCTCCCTAGTTTTCTTTGAAAAATCTGTTGTGGAAAATGTGACTGTGAGCCAGGTGTGGTGGTGCATGCCTGTAATCTCAGCTACTTGGGAGGCTGAAGTGGGAGGATCGCTTGAGGTCAGGAGTTTGAGACTATAGTGTGCAATGATCGCGTTTGTGAATAGCCACTGCACTCCAGCATGGGCAACATAGTTAGACCCTATGTCTAAAAAATATATAAAAATAAAATCTGATTTTATTAATTTATTTGAGACGAGATCTTGCTGTTAGCCAAGCTGGAGTGCCAGGCCATGATCGTAGTCAGTGCAGCCTTGTCCTCTACTCTTGGGCTCAAGTGATCCTCCTACCTCAGCCTCCCAAGTAACTGGGACTACAGGCACACACCACCATGCCTGGCTAATTATTTTTATTTTTTGTGGAGATGAGGTCTTGCTGTGTTGTCCAGGCTGGTCTTGAGCTCCTGGCCTCAAGTGATCCTCCTGCCTTAGCCTCCCAAAGTGCTGGTATTCCAGGCATGAGCTACTGTGCCCAGCCTAAATATAACTTTTAAAAATAAAAATGAGGAAGAAAGGTCGTTATACATACCTTATGATTATATATAAAACGTCAATGCTTCATATCTGGATTAAAAAAGAAAAACGAAGACAGACTGAAGAGAAACATATGGCTAAGGCTGAGGCTAAGGCCTGGCTGAGTTAGAAAGGACTAAAATAGGTTACTTATATTTTTCTATTTCAGCTACCAAAAGACTTCTTGTACCATAGACCAAGACTTGCCAGCAGCACTTAACTGTTAGTTTACTAAATGATTTGTATCCAGGGCTTGGAATAAAAAACACTGTCCTACACAACCTGGTCTGAGAAATTATGTAAGAAAAACAGTTTGTTCAATTTCTGAAATCTAGTCACATATCTTATAGTTACATTTTGAGTGAGCATTAAATAGAGAAATATAGTCAAATCTGAATAACGTCCAAGTGGGTCATCTGAAGTACTCTGGGGCTCATTCTTCCCTCCAGCCAATAAAAACCACACCCATCTAGCCAAAGCCCATCAGTGTCAGCGCTATAGCAGGAGGGCAGGGCGGGTCTTGGGACTGGCAAGGCCGAAAAGATCTAGGTATATAATAAATGTGCCTAGGTTTTTTTGTTTTTTGTTTTTTGTTTTTTTTTAATCTTTGGCTTTCTTCTTCTGTTCTTAG
Seq C2 exon
CATCATCTGTTCCTGTGGTATCCCCCAACACGGATGAGTTTTTAGATCTTCTTGCCAGCTCACAGAGTCGCCGTCTGGATGACCAGAGGGCTAGTTTCAGTAATTTGCCAGGGCTTCGTCTAACACAAAACAGCCAGTCGGTACTTAGCCACCTGATGACTAATGACAACAAAGAGGCTGATGAAGATTTCTTTGACATCCTTGTAAAATGTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000121957-GPSM2:NM_013296:13
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.389 A=NA C2=0.357
Domain overlap (PFAM):
C1:
PF0218812=GoLoco=WD(100=42.6)
A:
NA
C2:
PF0218812=GoLoco=WD(100=31.9),PF0218812=GoLoco=PU(47.8=15.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGTGCAGATACTATTGGAGATGA
R:
TCTTCATCAGCCTCTTTGTTGTCA
Band lengths:
343-1766
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)