MmuINT0125210 @ mm10
Intron Retention
Gene
ENSMUSG00000032827 | Ppp1r9a
Description
protein phosphatase 1, regulatory (inhibitor) subunit 9A [Source:MGI Symbol;Acc:MGI:2442401]
Coordinates
chr6:5157004-5158271:+
Coord C1 exon
chr6:5157004-5157027
Coord A exon
chr6:5157028-5158088
Coord C2 exon
chr6:5158089-5158271
Length
1061 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
TGCATACATTTCTGTCTCAGATC
3' ss Score
8.45
Exon sequences
Seq C1 exon
AGCCTGGATATGATAGATGACGAG
Seq A exon
GTGAGCTATCTGTGGGTTGTGTGTGGTGCCTTGTCTCTTCAAAACTGCTTTTCTCTCCTTACAAAATGACTATGAATCCAATACTAAAGAACCCCTTCCTCTGGAGTGGAGGGGAAATACCCTGCAATTGTTTACATTTGAATTAAAAGATATTCCTGGATCTAGAGTCCCTAAGCCCCACCTCCAGAGTCCCTAAGCCCCACCTCCAGAGTCCCTTACTTACCTCCTATAGCCATTACCAGACATGGTCTATTCTTTTTCAGTATCTGCTGCCTTTCCTCTGCTCACACTCTGCTTGTTCTTCATGTGACTCACCAAATAAACTGTCTTTCCTCTGAGATCTGCCACTGCTTCATCTTCTCTCAGCTCGGTGGCTCTGAGGGCTGTCATGCCCCTTTATGCCAATAAAGAGAATGGTCTACAGTGGGCAGAGTCTGGAATTTGCAATGAGCATCTTGTTAAGCTCTTATTGCTTATATTGTGTTGTCTAAGAGAGATTGTGTGAGCTTTTCAATCCTCAGTTCCCTCATGTCTTAAAGAAACTGTAGGTGTTGGCGCCCTACCTTCCACAGAGGTGTGCTTTCTGCTCCGATAAAACAATAGCTGTGAAGTTTCCCTGTGAAGGCTTGGGGGCTTTGAGACTTTTCCTGTAGAATAAAGGAGACCTTGATATTTTTAAAGTGTTTTAAATATAACTTTACTGTCTTCTAACAGAATAAATTTAAATGATGTATCACATGTACAGAACTATGAAATAATTATTTTCCACATGTAACTATATCTTCAGGCTTACTTATTATAAAATCATCCATGTCAGTGTGTACTTTTTTGATTTTTTAACTTCCTACACCTTTAATGGTACTTTTTTAATGGGATATCTTTAGATTTCCATCTACCAGAATCAGATAGGTAATAGACATGTTTCTTCTAACATAAGTAGAACTCTTATGTATGATTTACAAGTAAATGCAGCTCTTGTAACTTGAGAAATTACTTTACTAGCATAATATGAGCCATACTTTTTAAGTCATTTACCAATGCTGCATACATTTCTGTCTCAG
Seq C2 exon
ATCCTTGACGATGGACAGTCTCCCAAACACACTCAGAGTCAGAATCGGGCCGTTCATGAATGGAGTGTGCAGCAGGTGTCCCACTGGTTAATGAGCCTCAGTCTGGACCAGTACGTGCCTGAATTCAGTGCCCAGAGCATCAGTGGGGAGCAGCTCCTGCAGCTGGATGGAAATAAACTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032827:ENSMUST00000035813:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.500 A=NA C2=0.393
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0764712=SAM_2=PU(66.2=70.5)
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:
AGCCTGGATATGATAGATGACGA
R:
TTCAGTTTATTTCCATCCAGCTGC
Band lengths:
206-1267
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types