MmuINT0125228 @ mm10
Intron Retention
Gene
ENSMUSG00000038976 | Ppp1r9b
Description
protein phosphatase 1, regulatory subunit 9B [Source:MGI Symbol;Acc:MGI:2387581]
Coordinates
chr11:95005021-95006899:+
Coord C1 exon
chr11:95005021-95005117
Coord A exon
chr11:95005118-95005304
Coord C2 exon
chr11:95005305-95006899
Length
187 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGCG
5' ss Score
6.91
3' ss Seq
CTCCTCTCTTTGTTCTCTAGATC
3' ss Score
11.08
Exon sequences
Seq C1 exon
GGAGATCGAGTTCCTGAAAAAAGAGACAGCCCAGCGTCGGGTACTGGAAGAGTCGGAGCTAGCCAGGAAGGAGGAAATGGACAAACTTCTGGACAAG
Seq A exon
GTAGCGCCCTGGGCAGCCTACAGAGTGAGCAGCATGGAAGCTGGAATCCAGTACTCACTTAATCCATGGTGTTTGGGAAGGATTGTGGTGCTGGCTGGGAGCTCAGGGTCGTAGCTTAGGGTGGGGGTAAAGTTACAGGGCCCGTGCTGAGTGGCCAGGCCTGATGCCTCCTCTCTTTGTTCTCTAG
Seq C2 exon
ATCTCAGAACTGGAAGGAAACCTGCAGACACTGAGGAACTCCAATTCTACTTAACAGGAATAACTCCTTGGCCGGACAATAATAATCCCCTCCCATTATCCTCACCCCCTGTCCTCAATCCCCACCCCACCCCTACCAGCCTGGGGACAGGTGCCCCGACTTCCCCTACTCCTCCACCCCACCTCCCCCAGCTTCAGGGACCAGAGGGCCCATATTACAGGCCCCTTTAGGGTGGCCAGGGCAGACAATGCTGGCTGGAAGAGTGGTCTCCTTGCCCTGTGGGGCTGAGGCGCAGAGGCCGAGAGAAGCTAAGAGCTGGCCTGGGTGGTGGATGGACACGAGGACCTGCAGACCAAACTGCCAGACTTTATAACCTCCAGCCTGTGTCTCTGGACCGGAGTGGAGCTGGGGCTCTCCCAGCATCTCACCACTTGGAGGCTGCTCCCTGCCCACAGGGTCCGTATGGCCCCTGGGCCTCTTGACTTGAGATTCTCCGTTCTTGGCCCTTTCCTCTTCCCCCATCATTGTGCTGTCTGTTGCATTCTGGCCTCCTGCTTGGAGGGGTTGCCTCAACATCTCCCACCCCTGCTCCCCATCCCAGGAGGGATAGAGCCCACCCTTGAGCCAGAGGCTGGGCCTGGGCCTGCACTGATTTGTATCCTTCAGGGGGAGGTGATTGGGCGTCGGGGGAAGGGTCAGTCCAGCACACCTGGGGTCCAGCACCCCTTTCCTAGGAAGGGCAACAGCCCTCAACTTCTCCTTGTGCCTCCCCTCTCCCAGGTGCCAAACAGCCATAGGCGTCCTCCTGGAACTGCCCTGAGGCCACTCTGGGCTTCTGGTTTCCTTGGTCTAGCCCAGGAATGCCAGGAGGGAGGGAGGTCAGCTTAGATGGTGTGCCTGCAGAGCTCTCCCTGGGGAGCTAGGCCCTGCCTAGGGCCACACCTGGAGGCCTTGTATTACCATCGAGGAGACTCTGCCTCCCCTCTTCCCCTCCCCCGCTGTTTTCCAACGTTTTCACTGGAGGGCAAAATTTTACTAATCTTTTTGGAGACCAGGGCTGCTTGCTGTCAGCCTGCTTTCTAAGTGAAATTGACTCAGTTTCCCCACTTTAACCCCAAATTGGGGCTTGGACCAAGGGAGGTGAGACCCCCTCAGGTACCCTCCCCTTTCAGAATCCATCTCTTGCCACTTCCACATTACCACCCTTGCCCTAAGCCTAAATTTCTGTTCCTTTTTTTCTTCTTTTGAAAACGACCCAGTTCTATCCTTTTCGGTTTCTCCGAGTCCCCTGTAAATAGACCATGCCATCAATCAGTATTTCTTGCCCGTCTCTTCCGTCCCTAGACGTGCCCCCGACTCCCCGGAAAGAGCTGGCTGTCACTGTGCCCGGCCCCTGCACTTCACCCAGGCAGATGGAGGGGGTGGAGCCGGGTGGGCGGGTCCTCGATGTACTTCCGGTTTTGACCGGCAGCGCTCCTGCCCCGCCCTTGGAGGACCCCGTCTCTGTATATAATATATATATGTATGTATTGTTCCTGGTTTTGTACGGACCATGCCCTCTGTCAGGTCGTCCCCATAAAAGCAGCCCCCAGAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038976:ENSMUST00000038696:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.091 A=NA C2=0.588
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
AAAAAGAGACAGCCCAGCGTC
R:
GGTGGAGGAGTAGGGGAAGTC
Band lengths:
258-445
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