MmuINT0125223 @ mm9
Intron Retention
Gene
ENSMUSG00000038976 | Ppp1r9b
Description
protein phosphatase 1, regulatory subunit 9B [Source:MGI Symbol;Acc:MGI:2387581]
Coordinates
chr11:94861521-94862668:+
Coord C1 exon
chr11:94861521-94861625
Coord A exon
chr11:94861626-94862532
Coord C2 exon
chr11:94862533-94862668
Length
907 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGA
5' ss Score
7.4
3' ss Seq
TGACTCTGGTGCCCCTGCAGGTT
3' ss Score
10.02
Exon sequences
Seq C1 exon
GATCCAAGTGAACGACCTGCTGGTGGAGGTGGATGGGACGAGCCTGGTGGGAGTGACCCAGAGCTTTGCAGCCTCTGTACTTAGGAACACCAAAGGCCGAGTGCG
Seq A exon
GTGAGAGTCAAGGGAACAGTCAGAAAGCTGGTCCTCTCCGCACCAGGTCCCTGCCCGGGGAATTGTGCCTGCAGCCCCCTGCCAGGCCTGCCTTCCCATCCTGAGATCCCTGATCACCACTGAGACTCAGGCTTCCACTCTCCTTGTTCCTCCATGTTCTCCTCTCGGTTTATTCTCCTCTTCTTCTGCCTCTGGCTCGCCTATGGAAAACCAAACTAGCTTCTCCCACCTAGAGCTTCATCCCAGGTCCTGTTGGGCTCCACTAAGTCTGTGTGCTCCTCTGGCAGGTCACCTGGGAACTGCTGCCTGCCCCACTTCTAGAGGGGCACTGCCCCCAGGAAAGGGTGTTAGAGAGAAACAGGATGTGGGTGGCCAGGGGAGGGGGGAGGAGCTGATGCCTGGAAGTCCCACTGTTTCCTCCCCGTGCTAATCTGCAGTTGCCATCATCCTGCCCCTTCCTGACCCGGGGCTTGGAGCACACCCAAGTCACACCTCTACAGGCTATTCCCCATTCCCGAGGATGGGCCATTTTGCCCACTCCTGTGCTGTTGGCTTGGCTTGGCTTTGTGGTTGTTGTTTCCTCTTTGGTGGGAACAGCTCCTATGCCGAGAGCCCCTGAGCCCATGTCCCCTGTAGCCCCGAAGCATGGTTGACAGCCCCTTCCCACAGCTGGCCAGGAAGGTGAGCAGGTCTTCCTGCTTCTCCTGGTAGGCAGCCATGTGAGAGCCCCAGCTCCCCTATTCATTATTTATTCTACAGCTTCTGGACTCAGGCTCTCAGTTCACCTCCCCTGGGAGGGCCTAGGTTTGGAGGGAGGGCCCCACACAACAAGGAAGGCAGTGGCATTCCCAGCTGTAGCCAGGCTGGGGTGACGCCAGAATGACAGATGACTCTGGTGCCCCTGCAG
Seq C2 exon
GTTCATGATTGGCCGGGAGCGGCCTGGAGAACAGAGTGAAGTGGCCCAGCTAATTCAGCAGACCTTGGAGCAGGAGCGATGGCAGCGGGAGATGATGGAGCAGAGATACGCCCAGTATGGAGAGGATGATGAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038976-Ppp1r9b:NM_172261:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.500
Domain overlap (PFAM):
C1:
PF0059519=PDZ=FE(40.7=100)
A:
NA
C2:
PF0059519=PDZ=PD(4.7=8.7)
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:
ATCCAAGTGAACGACCTGCTG
R:
TCCTCATCATCCTCTCCATACTGG
Band lengths:
239-1146
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: