MmuINT0117047 @ mm10
Intron Retention
Gene
ENSMUSG00000024575 | Pde6a
Description
phosphodiesterase 6A, cGMP-specific, rod, alpha [Source:MGI Symbol;Acc:MGI:97524]
Coordinates
chr18:61249946-61253177:+
Coord C1 exon
chr18:61249946-61250012
Coord A exon
chr18:61250013-61253129
Coord C2 exon
chr18:61253130-61253177
Length
3117 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
GTTCCCCTCCTGCCTTACAGATC
3' ss Score
11.34
Exon sequences
Seq C1 exon
GAACCCACCCGCTGACCACTGGGCTCTAGTGAGTGGTCTCCCCACTTACGTGGCTCAAAATGGTCTG
Seq A exon
GTAAGTGATACATCTTGGGAGGGGGGTGTTGAATCTGGGGGACAGAAGAGTTTTAATGGCAAGAATGAGGAAAATGTGGTTAGTGTGAATCTTTCAAGGCAGAGGCTCTTGTTTTTTTTTCTAGTTTACTCAACACCTGACCCACAGAAGAGAGTAGATCATTGACATGTCTGGAAATAGCAACTATAGAGAAATAGTTCTTACATGGAAAGGCGCATAGTGTTCCTGAAGATAGAAACTTGTGCAAATATGTCAGGGGCAATGTCTTGACTCCTAGGCTCCCCAGGCACTAAGAAATAAGCTCTTACATCAGACTTGATTGTCATTCCCAGCCTCTCCCTTCTATCCCCACACACGGCAGAGCTATGTGCTATCTCCTGCCATGCCTGTTACTCAGACTTTTTGTTATTATGACAAAACACATGGCTGGGGACCTCATTTCAAAGCCACACTCCCAGTGACCTATTTCCTATAGCTAGGCCTCAAAATTACCCCACCCAGCTGAGGACCAAGCTGTCAACCCAAAAGCCTATATGGAATTTTCTCCCTCATATCTAGACCAAAACCATGTCCCACTCACTCAGTGTCATAGAGTAGAGTGATGTGTGCTGTCGCCTGTGTTCCAGGACAGGGTCGTGCCTGCTAGTTACATATCACCCCTATGCACTGCTTTGGCCTGTGACAAAGCATCATGGTAAATCAGTGGCCAGGAAGCCAAAAGGAGACAGGGAAATGAGGCGTGGCTTCCATTATTCCCTCAATGGCATGCTCCAATAACTGGAAGAGTACTTGCTAGGTTCACTTACCTCTTAAAAGTTTCTACTTCCCTTCAGGGTCTCATTGGTGAGCAAGAGTCTCATTTTACCCATGAGACTTTGGGGACCCTCCATATCCAGACTGTATGACATGTAGACTGAGTGCAGAAGCTGGAAGGAACATGATGTCTGTGCTTAGTGTTGCTGAATTATTAGGTCTGAGACAAGAGGACAGATTTCAAGGTGGGTCAAGAGGGAAGACGAAGCCAGATCTAGTGGGCCTTGGATGCTATGTGGAAGGCTGAGACTTTAATCCACAGGTCACTGGAGGCAGACTGAGAAGGGGACAGTTCACGTAAGAGGTGATAAGCATCTCAAAGAATTAGGCGGGGGATGGATGTCACTCAAGTGGTAGAGTGCTTGCCAATACTCATGAAGTTCTGTACTTCATTAATCCGGGTGTAGTGGTCCATTTCTAAAATCCTAGAATCCAAGAAGTGGGGGCAAGAGGATCAGAAGTTCAAGGTCACCCTTGGCTACACAGTGAGTTGGAGTCTAGCCTGAGCTAAATGAGACTCTCAAACAAACAAACAAATAAACCCCAATCTCAATGAAGGCCGATTGACACGGTCACTAGGTACTGACAATGACTCAGGCCCTAGGTATACGTGTTCATTTAATACAACTTCAGAAGAAATGAGATGCACATAAGGAGATGCAGAGTCAGATCTCATACTGAGAAGGCAAAGCCAGTAGGACTTGGTGGTTAAGCCAGAGGGCAGAGGAGAAACAGGTCAGAGCTGATCTCAAGTTCCTGGACCAGTTGAACATCACAGATGTTGAGCTGGGATACCCAGTGATAAGTCACCTATACTCAACAAGAAGTAGAGACAGTTCTCGGTGGCATGTCCAGCAGAGGAATGAAAAGACAGTTCCCATACCATGGAGTGCAGAGATAGAGATGGGGAGTCTCAGGGTCAGGAAGCACTGGAGACCACAGGGGCAGATTAAAGCTCCAAGGGACAGCGTATCTCGTGCGATACTGGGAGATGCCAGGGATTCCAGAGCTGGTGGAGGAAGAGGATTCTGTGATGGACAAACAGGAGAGGTCAAAACTGGAGACCCAGGAGAGGCAGTGCCATGGTAACCAAGGGAGCAATGTGAGAGGCCGCATGTATGTAGCACAGTGACGTAGTGAGGAAGAAGCAAGAGTCCCACCACAGCATGAGGCCCTTGGCAGACCCAATACAAACAGATTTGGTAGCGAAGTGGAGGCAAAGCCACAGGAAGGCAACTGAGGAATGGTGGTCAGTGAGCAGGTAGAGAATGTACGATAAAGGAGGAGAATGTTTGCCTGGATGGTTGTTATGGTGACTGTGTCAGCCGGAAGAAGATCAGCAAGGCTGTGGGAGAGAGTGGAGCACGTCCCCCTGAATTGGGAGCCACAATGAGGAAGGAGCAAGGGCATTTGATGGACAGTGCTTAGAAAGGACACACCCAGTTCCCCCGCTGAGACCAGGTAGCCTGTCTCTGCAGCCAATGTGCAAGCATGGCCCATGTGGGAACTTTTTGAGAACTGAAAGAAGAAAGTCTTTCACAGATGGATTTCAGGACTCAGCCAGATGTCGTTGTGCAGAGTGCACACTACACAACCACATACAGTGGCCCCATTGCCAGTGTTCCAGAGGGGGATCATAATGACCTCGTCTTCAAGAGAGAAATCTAGCAATATAGAAGCAGAGTTGAAACACTTTTTTGTTTCTTAATCTACTTTTACAGCCCAAGGAAAGAATTCCTTCCTACCAAATAAACAGCACTCTAATGTAACTGAGCCAGAGATGTTTAAATGACATCTTGTAATGATAGCCCTTAGGAGGCAGAAGCAGGTTGGCTCTAAATTCCAAACCTGCATGCATGGGCACACACACACACACACACACACACACACACACTCACTCACTCACATATTTGTATTTACATAACATGCAGACACAGGTGTGGCATGCATGCATGAGTACACACTCACACGTATGTGCACATCCTTATGCATGTACCTGGATATCCAAATACTTAGCATAAGAGCCACAGAATGGAATACTATGCAGTTATTAATAATGACAGCTGTACCCTTAGCTTTTCCAAACCTAGAAATGTTTAGGGTGTAACAAATAGAGTAAAAATCTACCAGGTGACCTTTCCTAGCTGGTACCTTCAGTTAATAACCCTGAGCCATTTTGAATCTGTCCACCTGATTTGGACAGTGCACTACCTTGGTCAAGGACTTAGGGTCTGAGTAGGGAGCAGGGCTTGCAGGCTCTTGCTCAGCTCGGGTCAATGGCCTTGTTCCCCTCCTGCCTTACAG
Seq C2 exon
ATCTGCAATATAATGAATGCGCCTGCAGAGGACTTTTTTGAATTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024575:ENSMUST00000025468:7
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:
PF0159021=GAF=FE(12.4=100)
A:
NA
C2:
PF0159021=GAF=FE(8.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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