MmuINT0116762 @ mm9
Intron Retention
Gene
ENSMUSG00000023868 | Pde10a
Description
phosphodiesterase 10A [Source:MGI Symbol;Acc:MGI:1345143]
Coordinates
chr17:9135737-9137285:+
Coord C1 exon
chr17:9135737-9135892
Coord A exon
chr17:9135893-9137234
Coord C2 exon
chr17:9137235-9137285
Length
1342 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
CACATGTGTATGTTTTGTAGGTT
3' ss Score
8.27
Exon sequences
Seq C1 exon
GATGAGCGATTTCCTCGAGGTACTGGCCTGGAATCAGGAACCCGCATCCAGTCTGTTCTTTGCTTGCCCATTGTCACTGCCATTGGAGACTTGATTGGCATCCTTGAACTGTACAGGCACTGGGGCAAAGAGGCCTTCTGCCTCAGCCATCAGGAG
Seq A exon
GTGAGGCTCCGACCCTGCTCTCTGCACCTTCTGTCCTCTTCCCTTCGTTGGTGGTCCCCGCCAGTGTTAAGTGACAACATGAATGGATCTCGAAGTCACTATCAGCCGGACCGTGTCTGGCTGTGAACAGCAGCATTCTTAAAAACCTGTTCTCTTGAGCAGCTGTTTTTAGAGAAGAATGGCTAAATCAGAAGTACAGTTTTGGCTTTTCTTTTTCTTATATAAATATATCTTAACAACAACAACAACAACAACAAAAATGTGCTTTGGTGCATATCCAGCCAAGCAACAGGATGGAGTCCTGGTTGCCTCGTGTCTTCCGTAGATGTTCTTTCTTCCTAAGTTACATGAACACTCCAGTCTCTGCTGTCTCTTCATGGGCTGCATTGGAGTTGACTCATTAACACTGAAGTCACATACTGCCAGCACTGGTACCTTTCTTGTGCTGGCTGGATGAACCAGGTCCCTAGGGGTCTGGCTGCACCCCATTTCTGAATGATCTACTTCTAGTTTCCTGGGCTGTCCCTCACTTCTTCCACACCCAGGCCCCTGGGAAGAAGTCTTGCCTCCCAGTGCCTTGGAGAGCAGTCCCTGTCACCTCACACCTAGTGCCTTGAGTGACTTCTGCCATGGAACCTGTCAGGTCCTTCCTTCTGTCCTGCCATATACACCATTCACTGTCCTTTCAATTGCACGAGACACTTCCTTCCTCTCCAGCCTTGGTCTTATTCTCTCCTCCGGGACTTCACCTAGAACTAACACTTTGTACCCAGCAAAGACATGCAATGTGGAAACCAGTGACAGGAGGGGAATATGGGAAGGGGAGGACGGCTCAGTGAGCAGTATGAGAATGGGTTTCCCAAAACCCCTTTAAAAAGCCAAATGTGGCAATGCAAGTCTCTGTAGTCACTAGTCCTGGGGAGCAGAGACAGGTGGGTCCCTGAGACTCTGTCCATCAAATCTAGTCTAATGGCTGCACTCTAGGCTGGTGGGATATTGCCTCAAAGTAGGTAGACATTTCTTTGATCATTCTCTGCCCTTCATACATGTGCATATATGTGCCTACACATGACACACATGGAAATAAAAGTAAAAACACAATTGGAATATAAGCTTGAGTCCTCGAATGCATGAGGTGTGCACATGGTATTTTCCCCTCTTAGGGATCCCCCACCAGCCTGAACAGGCAATTAGAGACGTTTTCAGTTTCAATTTTTGCTAAACTGAAAAATAATTGTTTAATATTAAAACAAGATGATGCACACTGGCCAGATGGCTTGCTGTGCAAACCTGCTGACCCAAGATCAAGGTTGTTTGATATGCACATGTGTATGTTTTGTAG
Seq C2 exon
GTTGCAACAGCCAATCTTGCTTGGGCTTCCGTAGCAATACACCAGGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000023868-Pde10a:NM_011866:7
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:
PF0159021=GAF=FE(35.4=100)
A:
NA
C2:
PF0159021=GAF=PD(8.3=70.6)
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:
ATTTCCTCGAGGTACTGGCCT
R:
TGCACCTGGTGTATTGCTACG
Band lengths:
198-1540
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: