HsaINT0071928 @ hg19
Intron Retention
Gene
ENSG00000160360 | GPSM1
Description
G-protein signaling modulator 1 [Source:HGNC Symbol;Acc:17858]
Coordinates
chr9:139250794-139254057:+
Coord C1 exon
chr9:139250794-139251002
Coord A exon
chr9:139251003-139252465
Coord C2 exon
chr9:139252466-139254057
Length
1463 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGC
5' ss Score
8.07
3' ss Seq
ACTGCACTGTGTCCACCCAGTCC
3' ss Score
6.93
Exon sequences
Seq C1 exon
CCCAGCCCTCGATGACGGCCTCGCCCCAGACCGAGGAATTCTTCGACCTCATCGCCAGCTCCCAGAGCCGCCGGCTGGACGACCAGCGGGCCAGCGTGGGCAGCCTGCCGGGGCTGCGAATCACCCACAGCAATGCAGGGCACCTCCGAGGCCACGGCGAGCCCCAGGAGCCGGGGGACGACTTCTTCAACATGCTCATCAAGTACCAG
Seq A exon
GTGGGCTGCGGCCCTGGGCGGGCGTGGCTCGCGGCCCCTTTGCCATCCACGTGTGTGGAGGCAACTTGTGTCCTGAGGGGTGAGGTGGGCGCTGGTTCTGCCATCTCCGGTCATGTTTGAGGGACTCCTGGGGGACTCAGCCAGTGTCACCACATGACCAGGGGTGTCTGAGCCTGAAGCCCTACTCCTGGGAACCCCGGGCTGCTGGAGACACCAGAGACCCCCCCTGGCAACCCCAGGACACTCCCAGGCTGTGCCACCCCCCTGCCATGCAGGAACTCGGGGTGGGGGCTGGGGGGTCACAGGTCCTGGAGCTCATGGCCTCAGGGATTCCCCACCAGCCCTCCACACCCGGCAGGGAAAACACGGGCCAGATAGCACCCCCAGAGTGGGGAGGGCAGGGGGATCCAGGGCTGCCAGCTGGCTGGTGGGACAAAAACAGGGACCATCCAGGGACCACACAGTGGACGGCATGGGCGGAGGGTCCAGCCCCAGAGGGCAGAGCCAGGGCCGGGGCTCCAGCCTGGCAGCCACGCCAGGAATGACCTCCTCATCTGTGTGGGGGTGAGCCAGGTAGGGTGGCCGGAGTGGAGACTGCTGAGCCAACTGCTATCCCAACTAGGACCTCAAACTCTGGGGGTCTCGCCATCCCTGTGGGGTGCAGCCATTGCTGGGAAGGGGTTCAGGGTCCGTAGACTTGGGAACAGGCTGGGGGTGGAGGCCGCTTGGCCCACCACGAACCAAGCCAGCACGTTTCCAGGTCTGCCGTCCTCCCCACAGCAGAGAGGAAACCTCGGCCCGGGGCCAGGCGTCCGACCAGCCACCTCCAAACCAGCCCCACCCAAGAGGCCCAGAGTCCCCCATCCACACGCATGCCTGCGCCAGCTCCCGTCCCTCCTGCTCCAGGCGCTTCAGAGAAGCCCAGACAACCCCTTGGCCCCCTGGCCTGCACACTGGAGCAGGCGAGGCCCACGGGGTCAGCCACCTGACACAAGGGGAAGCCCTGGGGGGCGCCACACTTCGGGCTCTGGAAGCTGAGACCTCAGGCCTGCCAGGGTCAGTCCCAGGCTGTGCTGGTTTCCAGGGCTGGGCAGAGGGACGGCCACGCATGCCCGTCCCTGGGGATCAGCAGATGTGGGGAGCAGGCATCCAACGCCGCCCTAGCCACTGTCTCCTGGGCCTGGCACACCCATGCCCAGTGGGAATCGCTGGACCTGCTTTTCCTGGGCGGGCCTGCCCTGGGCTCCTGCGGGTTGGTGGCGGGGCCACCAGAAGACTGCGCTCAGGGCCCGGGCTCCCAGCACAAGACCCCAGAGCGAGGCAGGCCCCAGAACCAATTTCCTGGGTGGACAGGGGGAAGCCCGTGAACAGTGCACGCTGGCCTCTGGAACCACCGCTGCTGACCAGCCCCGGACCACTGGGGCTGGGGGGGTGAGGCCGCCAACTGCACTGTGTCCACCCAG
Seq C2 exon
TCCTCCAGGATCGATGACCAGCGCTGCCCGCCACCTGACGTACTGCCCCGGGGCCCTACCATGCCGGACGAGGACTTCTTCAGCCTCATTCAGAGGGTGCAGGCTAAGCGCATGGACGAGCAGCGGGTGGACCTCGCCGGGGGCCCGGAGCAGGGGGCAGGCGGCCCGCCCGAGCCCCAGCAGCAGTGCCAGCCTGGTGCGAGCTAAGGCCCTGTGCCCACCGCCAGGCCCACCCTGCCCCCACTCCTGGACGCCGGTCTCACAGTCACAGCCACGTCCTCCCGAGGCCATTGCCGAGGACAGGCACTGGGCATGCAGCCCCACGGCCTCCCCGACCCAGGGCGACAGGCTCAGGCCAAGCTGCCCGTGGTGGGAGGGCGTGCTTCCATCCCGGGCTGGCCCCCATGGCCCTCAGCTTCCTCCCTTCTGCCCCTGCCGCAGGCCGGACGGGGCCTTCGGCATGTCGGCCCCGACCTGGTGCTGTCAGACTCCCGCATCCTCTCCCCCAAGCCCTTCCCGTTCTGCCCTGCCCTGCCAAATGTGAAACCCTGCTGTCTCCCCCACCCTCCCCAAAGGTGTCTCTGAGCCGCCTCTTGGGGCCACCAAGGACAGGGCCATGTTCTGTCCCCCCAGAGCTGGTCTTGGGATGGCCGTGTGACAGGCATGCTCCACCCCTCCAGCTTCGTCCTGGGGCAGGGCTCCCTCCAAGCCTGTCTCCCCACTCCCCGGCCAGAGGTCAGCAACCACAGAAGGCCCCCCAGACCACGCATGGCAGACCAGGCTGCAGTGGCAGCCCTGAGGTGCCCCCCGCCGAGTCCCAGGGCCCTGCAGGGGCCTCGACAGGAGCCGGGCCTATCTCTAAAGCAGAGGGAATGGCTGGGCATGAACTTCGACATTCCAAAACCCCAAGCCAGGAAAAAGGGCAGGGCCTGGTCCTAGGGATGCTTACTGGCAGCAAGAGCAGTGCCCAGTCAGGGTGGGAGGTAGCACCAGGCTCTGTGACCCTCACCCAAGTGGGGGGGTGGTCAGTGGAAGCTGGGGAGGCTTCACTCAGCTCAACCCTGCAGACCCCCCATATGAGAACCCCCCTCCTCCCACCAGCTGGGGGAGATGACATCACTGCTCTCTCCATGGGGAGGGGGCTCACAGGGCACCAAGTTCGGGATCCTAGGACTGGCAGGACCTGCTGGAGCCTGAGATGGGCCCCAGGGGCCTGAGGTTGCCTCCTCCTGTCCAGACCCAGCCTTGGCACCTCCCAAGACTGCCAAGGGCCCTACCATGGCCCCACAGCCCCCAGGGCTGGCAGTTCCATCTAGGAGGGTGCCTCTAGGCCCCACTCTCAGGCTAGGATGGAGAGGCAGATCTGGGCCTGGTGAGGTGACCTGCTTCTGGAGGGGCAGGGCCGCACCCGAGAGCAGGGACAGGTGCCCGAACACAGGGTCTCCAGGACGTAGCGCCCCCCCGCATACTTGAATGTATGTGCGTATTTATTGCTCACGTCTGTGCCATGTTGTCAATGGGTCCTTTCCAACCCAAGAGGTACATTTGTTTTTCTGTTTTTCCTGAAAAATAAAGTCGGCCAAGTGAGTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000160360-GPSM1:NM_001145638:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.943 A=NA C2=0.961
Domain overlap (PFAM):
C1:
PF0218812=GoLoco=WD(100=32.9),PF0218812=GoLoco=PU(47.8=15.7)
A:
NA
C2:
PF0218812=GoLoco=PD(43.5=14.5),PF0218812=GoLoco=WD(100=33.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGGGACGACTTCTTCAACAT
R:
GTGCCTGTCCTCGGCAATG
Band lengths:
344-1807
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)