MmuINT0117013 @ mm10
Intron Retention
Gene
ENSMUSG00000053965 | Pde5a
Description
phosphodiesterase 5A, cGMP-specific [Source:MGI Symbol;Acc:MGI:2651499]
Coordinates
chr3:122823056-122825009:+
Coord C1 exon
chr3:122823056-122823181
Coord A exon
chr3:122823182-122824914
Coord C2 exon
chr3:122824915-122825009
Length
1733 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTT
5' ss Score
8.17
3' ss Seq
TTCAATGCCTTTGCACACAGAAC
3' ss Score
6.34
Exon sequences
Seq C1 exon
GTTCTTTGCAGGTGGATTTTAAGTGTGAAGAAGAATTATCGGAAGAACGTTGCCTACCACAATTGGAGGCATGCCTTTAACACGGCACAGTGCATGTTTGCTGCTCTGAAAGCCGGCAAGATCCAG
Seq A exon
GTACTTCCCGGAGCCATTCAGACTCCTGCTCAGTGGAGCTGACAGCGTATCTTTTCAAATTATTTTCTTTCTTTCTTTCTTTTGTTGGGTTTTTTTTTTTTTTTTTTGGTTTTTTGAGACAAGGTTTCTCGTACAGCCCTGGCTGTCCTGAAACTCACTTTGTAGACCAGGTTGGCCTTGAACTCAGAAATCCTCCTGCCTCTGCCTACCCAGGGCTGGGATCAAAAGTGTGTGCCACCATGCCCGGCTCAAATTATTTTCTTATGGTGATTGAATAATTTATCAAATAGTGGTTGAAAATTAGCATAATAGTTGGCTACTAACTTTCTTTCATTCGCAATAAAATGTTATGTAGTAAAATCTTTTAACATCATGTTACATTTTCATAATCCCTGGGTCAATAAATATTTCCATCAGAGGAAGACAGTGAAAGAAAATCTTCTCATTTTACAGTCAACTGCTCCACGGTGGAATTACTCAAAACCCACCAAGTGTCACGATAGATGAGTTCATTGTCTGCCAGACTCTGTGGAAGGCTGTCACTTCTATAAATGCTATTCCAGACAGGTTTTGTTTCATATGCCTTGGTCAGAGCCTGAGTAGAAGGAAGATCAGTGCAGAAAACAAACCCATAAAGTATCCATTTCTGTCAAATATCCTACTTTCTTAGGTTAAGTTCCATTTTAAGTGGCCAGTTTTAAAGGAAGTGACTAGGCTTGGGTTTGGCTTAGCGATCGAACACTGGAATACCATGTGTAAAGCCTTGGACTTGATTGCAGAACCTTGTCTAAGAAGCCATACAAAATAACACAGCAGCTATTTTACGCCATAGAAAAATTCCTAAGAAAAGGATAAGCTTACCTTGGGTTGGCCGTGAGTCTTAGGATTACCACTACAGAGAGCTAGCTGCCTGTGCTTCTGTGGAGAAGGAGATGACGGTTGTCACAGGTGCTCCAGAGTCACAGTGCTGGGCCTTCTTGTGCGATAGAATGGTGTGACAGTTTAACTTGTATTTCATACACTGTGTCACCGACAACGGGCATAGCACTGTAAATAATATAAATGACAAGTACTCAGAAATAACTGATATGTAGCCTAGGAATATATTATGCAAGATTTGAGAGCCATTTTTCTAGTAATTTTATTCCTACTATATTATTTAATAGTCACGTTGTCTCAGTTGCTTAACAATATAGCAGCTGATCACAGGGAGGAAAACAATGGTTACAGAAAACAGAAGAAAAAATATTAAAGTGTGTTAAAGTCACTCCACATCTGTAAGATTCATGGCATTACTAACTGTGGGTGGGTAGAGTATTCTCTTTCTTTTTTTAACTTAAAAATTATGGAGTATGTGTTGGTGTGCACGTGTCACGGCACAGGTGTAGAGGTCAGAGGGCAACCTCAGGAGGTGGGTCTGTCCTGTCCCTGTCTGTTACCAGACCTGAACTCAGGTTGCCAGGTTTGCATATATAGCAAACACTTTTATCCACTGAGCCAGCTTGCTGTTCCCAGATTATTTATTTTTGTAGCATTTCAATTTTTTCTATTGTTTGGTGACATTTGTGGTAGCTCACTGTAAATGGCCACATGAACGGTCTCCTGCAGGGTAGAATTTCTGGAGAGCGCTCTGTGGCCACACCAAGTACAGGATTTAATACTGAGAAGTCGTAGGAGAACACCGCGCCCCACACTTTCTCTCTCTCTCTTTCCTTCAATGCCTTTGCACACAG
Seq C2 exon
AACAAGTTGACGGATCTGGAGACCCTTGCGTTGCTCATTGCTGCTTTAAGCCATGACTTGGATCATCGTGGCGTGAACAACTCATACATACAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000053965:ENSMUST00000066728:13
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:
PF0023314=PDEase_I=PU(26.4=54.8)
A:
NA
C2:
PF0023314=PDEase_I=FE(13.0=100)
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:
GTTCTTTGCAGGTGGATTTTAAGTGT
R:
TGTATGAGTTGTTCACGCCACG
Band lengths:
214-1947
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