MmuINT0116750 @ mm10
Intron Retention
Gene
ENSMUSG00000023868 | Pde10a
Description
phosphodiesterase 10A [Source:MGI Symbol;Acc:MGI:1345143]
Coordinates
chr17:8962888-8964715:+
Coord C1 exon
chr17:8962888-8962971
Coord A exon
chr17:8962972-8964564
Coord C2 exon
chr17:8964565-8964715
Length
1593 bp
Sequences
Splice sites
5' ss Seq
CTGGTATGA
5' ss Score
6.69
3' ss Seq
ACAGTCTCTTCTCCACACAGTTT
3' ss Score
8.07
Exon sequences
Seq C1 exon
ATTCCACTTTGACATTGGTCCTTTCGAGAACATGTGGCCTGGGATCTTTGTCTACATGATCCATCGGTCTTGTGGGACATCCTG
Seq A exon
GTATGAACAACCTGTGGGATTCCTTTTGAATGGGGGCGGGGGGAGGACCTCCTTTGCCCACTTTCACCTAGCCAGGATCATTGTATAACTGTGGTAAAATACGACATTTTAATAAACAGTTAAATAAAAACCGACTGAGCTTGTACAACCGTGCAGCTTTTCCAAGTGCTCCAGAGACTGTTGTCTTCCTGGCCACTTTGGCCATAGCCACAGCAGCCTCGCGTCTAGGTTTTGTCCCAGAAATGGGTACTCTAAATGTAACAGAAATGCTAGCATTTCCCATTAACATGTCCCATATTCCAAATAGCAATGAATGTTGTTTAGGCTGTGCAGCAGAGGAGGTGGGGTCCAAGCTTAAAGCAGGGTGTTTGGATATTGTGCATGCCTGGAGCATTCACACAAAAGTCTTTTAGGAAGTCTGACAGCAACCACAGGCTGTCACCCTCTGCATCTGCCATGTCTGACGTAGCTTTGTGACTTTATGTGTGATGGTTTCTGTCTTGCTCACACAAGTTGAAAATGTACGGCTGTATTTGCTCACGTTCTAAATGGTCATGTTTTGGACTAACCACACCCTCCTGTCTCCATGCCTGCAGAGCCTTTTAGTTTTTCTGGAATGACATTACCCGTCTTCTTGAGCCTTGTGTCTTCTCTACTTTAATCAATTGCAAGTGCAGGACTAGCAGCGCTGATTGTTTAATAGATATTTGAGGGTTGGGCTGGAAGTCGTAAGAGGCCAGACTTTGTATTTCCAGGACATTGAGCTTTTCTTTTTTAATTTATTTATTTACATAAGTATACTGTAGCTGTCTTCAGACACACCAGAAGAGGGCCTCAGTCCCATTATAGATGGTTTGTCAGGTGCAATAGTATTGGTGTCCTCCTCCTTCATGTACTGTATGAACATTTGGATGTGGCTGCTGCAACATGAGTGTCCCTTAGCACCTTGGATTCCCTCTAGAAGCATAGTCAGATGCAGAGACAATTGTTATAATCTATGCTCAGCATTTGTAGCTCTAAGTAAGCCTCTTAGAAGTTCTTAGCTGAGGATGCTCTTGGCCAGGAGGATGCCATACATGGCCTTCTGAGCCCTCTGGACCATAGGAAATGCTTGTAAATACAAGAAACTTATGGAGAATAAGTTGGGGTGGACTGCATGCTGACTGGAAGAATGGAGCTATCAGAGTTGGGCTTGCTTTTCTTGCTGTTTTCTGGCTATAGAAGGAGCAGGAAGTAGAAGTGACTGTAGAACATATGGTTGGCCAGGAGGAAACCCACAGATGTGAGAGGCAACCCACAGGTGCGTGAGGGTGCCCACAGGTGAGGGAGTCCACAGGTGTGTGAGGGAGTTCACAGGTGTGTGATGGAGCTCACAGGTGTGTGAGGGAATCCACAGGTGTGTTAGGGAGCCCACAGGTGTGTGAGGGAGCCCACAGGTGTGTGAGGGAGCCCACAGGTGTGTGAGGGAGTCCACAGGTGTGTGAGGGAGCCCACAGGTGTGTGAGGGAACAGACAGTAAACACCTCAGTTAGATGCTCTCCTGAAATGCATGCTGCTATGCTGGCCTTGTCATACAGTCTCTTCTCCACACAG
Seq C2 exon
TTTTGAACTTGAAAAATTGTGCCGTTTTATCATGTCTGTGAAGAAGAACTATCGGCGGGTTCCTTACCACAACTGGAAGCATGCAGTCACGGTGGCACACTGCATGTATGCCATACTTCAAAACAACAATGGCCTCTTCACAGACCTCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000023868:ENSMUST00000089085:15
Average complexity
IR
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:
NO
A:
NA
C2:
PF0023314=PDEase_I=PU(11.9=54.9)
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:
CCACTTTGACATTGGTCCTTTCG
R:
CGAGGTCTGTGAAGAGGCCAT
Band lengths:
230-1823
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