HsaINT0071943 @ hg19
Intron Retention
Gene
ENSG00000121957 | GPSM2
Description
G-protein signaling modulator 2 [Source:HGNC Symbol;Acc:29501]
Coordinates
chr1:109439486-109440249:+
Coord C1 exon
chr1:109439486-109439707
Coord A exon
chr1:109439708-109440113
Coord C2 exon
chr1:109440114-109440249
Length
406 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATT
5' ss Score
8.83
3' ss Seq
TTGTTTTTTGTTTTTTTCAGGAC
3' ss Score
12.95
Exon sequences
Seq C1 exon
AATGGAAGCTTCTTGCCTAGAGCTGGCCTTGGAAGGGGAACGTCTATGTAAATCAGGAGACTGCCGCGCTGGCGTGTCATTCTTTGAAGCTGCAGTTCAAGTTGGAACTGAAGACCTAAAAACACTTAGCGCTATTTACAGCCAGTTGGGCAATGCTTATTTCTATTTGCATGATTATGCCAAAGCATTAGAATATCACCATCATGATTTAACCCTTGCAAG
Seq A exon
GTAATTAATTTAAGCTTTTAAATATTCTTCCTTCTGAAATTAGCTATTACTTTAAAAAATATTTCTATTCAATTAACAAAAACTAACTTAATACATTTAATGAGTTCTACTTCAGTAACATCGCTTTTCAAAACTAACCTTTAGGCTGAACACAGTTTAATTGAATGAATAGTAGTGAATTGACCCTAGAGTTTAATTAAATGGATGAAAACTAATTACATTCAAATCCAGAAATGTAAGTTTTAAATATTTATTTAAAGTAGGTTTCAAAGCCAATGGGTTTTTCTTACCTTAAGCATGTCAGTTTGTCCTCTTGGAAAACTGTACTCTGGCTACTTTATATTTTAACACCATTTGTATTTTAATACCATTTGGTTTTTTGTTTTTTGTTTTTTGTTTTTTTCAG
Seq C2 exon
GACTATTGGAGACCAGCTGGGGGAAGCGAAAGCTAGTGGTAATCTGGGAAACACCTTAAAAGTTCTTGGGAATTTTGACGAAGCCATAGTTTGTTGTCAGCGACACCTAGATATTTCCAGAGAGCTTAATGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000121957-GPSM2:NM_013296:3
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:
PF134141=TPR_11=WD(100=96.0)
A:
NA
C2:
PF134141=TPR_11=PD(0.1=0.0),PF134241=TPR_12=PU(64.5=87.0)
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:
TGGAAGCTTCTTGCCTAGAGC
R:
TCTCTGGAAATATCTAGGTGTCGCT
Band lengths:
343-749
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)