HsaINT0071949 @ hg19
Intron Retention
Gene
ENSG00000121957 | GPSM2
Description
G-protein signaling modulator 2 [Source:HGNC Symbol;Acc:29501]
Coordinates
chr1:109445748-109446876:+
Coord C1 exon
chr1:109445748-109445856
Coord A exon
chr1:109445857-109446746
Coord C2 exon
chr1:109446747-109446876
Length
890 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGA
5' ss Score
8.55
3' ss Seq
TATAAATGTTTGTGTTGTAGGTT
3' ss Score
10.18
Exon sequences
Seq C1 exon
AATTGGTGAAGGAAGAGCATGTTGGAGCTTAGGAAATGCATACACAGCACTAGGAAATCATGATCAAGCAATGCATTTTGCTGAAAAGCACTTGGAAATTTCAAGAGAG
Seq A exon
GTATGAAACTAAAAAAAATGCTGTCTGTGCTATTGTAATTTACAAATTAGAGGTTGGGGGAGGGAACCCTATTTCTCTAGATTGATCATGTGGCTGAATAATAAATTTGATTATATATCATTCTCTTGGCATAAGAACCCCAGAAAGCATTTTGAGGTACAGATCACAGTTATGTTTGTATTGGCTTTCATGTAGGAAGACAGGAAAGTAAGGCCGGGCATGGGGAAGTGGAAGGAGAGTACTAAAATATGCCCCTACTCTACCCGCATCTCTACATGGAGAAGTAGCATGGTATTGAAGGAAAAGCATGGTTCTTAGAATTAAGGACTGCTTCCTGTTGTAGTTCTGCCACTTACTGGCTATTTGAGCTTGGAAACCTTTTCTGAGCCTCAGTTTCTCTCATCTGCATAATGGGAATAATAATATCTACCTTGCAAAGTGTTATAACGATTAGAGCTAATGTATATTAAAAGTGCCTAGCAAAATGTCTGGTGCTGGCTTAATAAACATTATTATTATACTATGGGAATAAAATATTCTAAGAAAATTTTATTCATATACCAAGTTAATGTGTCCAGGATAATCTACATTATTACTTAGTATGATTCCAGAGAACAAGAGCAATCTAATGTTTAGAGAACTAAAGAATTAAAAGAATACAATTAGCTGTCCTATTGTGATATTTTAGAAGCTTGCTTTTTCTTTCTGTATTCTTTAAGACAACTATTAATGGAAAAAAATTTTCATTCATTCATAGTCTCATAATTCTAATATAACTATTTTCATTTCTCTATATTTTCTTCTAGTTTTAGGTTCACTACATTTACAAATAATCTTCACCATTCTTTCTCTTTAAATACTACTCTAAAATATAAATGTTTGTGTTGTAG
Seq C2 exon
GTTGGGGATAAAAGTGGTGAACTAACAGCACGACTTAATCTCTCAGACCTTCAAATGGTTCTTGGTCTGAGCTACAGCACAAATAACTCCATAATGTCTGAAAATACTGAAATTGATAGCAGTTTGAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000121957-GPSM2:NM_013296:9
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=0.152
Domain overlap (PFAM):
C1:
PF134241=TPR_12=PU(55.2=86.5)
A:
NA
C2:
PF134241=TPR_12=PD(41.4=54.5)
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:
TGGTGAAGGAAGAGCATGTTGG
R:
TCAGACATTATGGAGTTATTTGTGCT
Band lengths:
207-1097
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)