MmuINT0116752 @ mm9
Intron Retention
Gene
ENSMUSG00000023868 | Pde10a
Description
phosphodiesterase 10A [Source:MGI Symbol;Acc:MGI:1345143]
Coordinates
chr17:9160284-9162565:+
Coord C1 exon
chr17:9160284-9160439
Coord A exon
chr17:9160440-9162392
Coord C2 exon
chr17:9162393-9162565
Length
1953 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
GTCCTCTGGTCTCTCTGCAGCTG
3' ss Score
11.28
Exon sequences
Seq C1 exon
CGCAAAGGCCTGCTAATTGCGTGTCTGTGCCATGACCTGGACCACAGGGGCTTCAGTAACAGCTACCTGCAGAAGTTCGACCACCCCCTGGCGGCGCTGTACTCCACCTCCACCATGGAGCAACACCACTTCTCCCAGACGGTGTCCATCCTTCAG
Seq A exon
GTGAGCCTGCCTAGCTTCCGCACATGCTCCTGCCCCTGGCTGGAGAAGATTCCTATGGGGTGCTACTGCTCCGAGAGGAGAGAAGGGAGAAAGAGCTCCACAGCTTACTCTGCAGGCAGCAGCTGAAGTCTACTGTGCCGTCTGAGGTTTACAGCCACAATGCTGAGCAGGTTTTAAGATCCGACATGATTTTTCTTGGTGTCTTCAGTGACAGGGTCTTCACTGGGCTAGTCATGTGGGTGACCGATAGCATTGGCAGTCATTTTAGAGACCTCTGAGGTCACCCTGACCAAAATAATTGGTAGGGAAGCGGTTCCATATCTGGCGAGGTGGTTTTGTTAATAGCCTATGGCTTCTGGAAGAGGCACTGTCCACCCATGCAGAACTCTTGTTAAAAATTTCATATTTTAAAGTTAGCTTACTAATTATTCAGTTTCCAGAAAGTTTAGGCTAACCCACCTATTACCCTTCCTCTCTGTTCTCCCCCATCCCCCACATCCTAGGCTCACACACACACACACACACACACCCTCCACACCCCAGGCTTCCCCTCTCCCTCTGATTTTCCCTCCCCACTCTACTTTCATCCCCCCCCCCGGTTATATTTTTAATTGTATTGTTAAATAGTAGGTTTCCATATGACTTTTTCTTACGTCTTAGCCACTGATCTACTGCTGCGGAGAGGCTCTGTGACCAGTGTGATTCTTATAAAGGAGAGCCTTTAATTGGGGCTGGCTTACAGGTTCAGAGGTTGAGTCCACTGTCATCAAGTCAGGAAAGATGGCAGGCAGACATGGTGCTAGAGGAACGGAGAGTTCTCCATGTGGAGCTGCAGGCAGAGAGAGAAGGGGGTGGAGGGAGGGAGAGGGGCGCACAGAGAGACAGAGAAAGACAGAGACAGAAACAGAAGGAGAGACAGGGAGACAGAGCTGGCTTCTGAATCCCCAAAGCCCATCCCTAGTGACACACTTCCTCTAACTAGGCCACCTACTCCAACAGGGTCACATCTCCCAGTATTGCCACTTCCTATGAGCCCATGGGTGGCTTCAAACCACCATACTTAACTTTGGGCTATTCCCACACTTCTGGACCCCTCCAAGCTTAAGCCTTTGTGCCCTCAGCACAGACCCTCCATCTGCCTCTTCACTTTTGTTTAACCTGTAGTCTGTTCTCCCACCTTCACCTTCCATGAATATATCCTCCCTCAAACAGCCCCTGGCTTCCACTTGGTACTCAAGTATTTTGTGAATGGCTTCTGCCTACTGTGGGGCCACAGTGTCTACTACCCACCTATAAACCCCAAACTGTGCCCTCTGCTGAAGCAAGGGTCTCCTGTGTTTCTGGCTCAATGTGGGGCATTCCTTCTCTGGTAATACTATTCCACGGTACCCCCACATAGCTTGGAGGCACAGTCTTGTACGCCGTTAGTTATCCCTGTTCCTCTGTGCTGATGCCCCTTGGGCTGCTTTCTTGCCCCTTGAGATTTTTCTCTTCCAATTGGATATTGCTGCACTGTGTCTAATGTGCCCGCTTCTCCTGAGCTACAGGAAGGGAGATTACTAGTCACAGTGTGACCTGAAGTGTTTGAGGCTAGAGGCACCTTTCTAAGTGTGTGTTTCGGTAGTGTATGAAGCTTACTGAAGTTAACTGGCCTAAGAAAGCCCCGCAGGCAGTGCCACAAGTTCATACCATCAGCCCCATCACCATAAAAACACACCAAAATAAGGTAGAGCAACAACGTCACTTGGGTTTTGTGGTAGCAAGTGGTATCCTCTGGGTAAAATGGCCCACATAAGTGGTACCTCTATCATTGCAATGAAGCAGACCCCATTTCCCTGAGTTTGTCATTAGGGTGGCACTCGGCATTGCTGTCCACAACGTTTCAAATAGCTGGAGATGCCTCGAAACCTGAGTGTGGGTGCTATTGGTGGTGGTCCTCTGGTCTCTCTGCAG
Seq C2 exon
CTGGAAGGGCACAATATCTTCTCCACCCTGAGCTCCAGCGAGTACGAGCAGGTGCTGGAGATCATCCGCAAAGCCATCATCGCCACCGACCTCGCCCTATACTTTGGGAACAGGAAGCAGTTGGAGGAGATGTACCAGACAGGGTCGCTGAACCTCCACAACCAGTCCCATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000023868-Pde10a:NM_011866:17
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=0.000
Domain overlap (PFAM):
C1:
PF0023314=PDEase_I=FE(21.6=100)
A:
NA
C2:
PF0023314=PDEase_I=FE(24.2=100)
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:
CAAAGGCCTGCTAATTGCGTG
R:
GATGGGACTGGTTGTGGAGGT
Band lengths:
326-2279
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: