MmuINT0117042 @ mm9
Intron Retention
Gene
ENSMUSG00000024575 | Pde6a
Description
phosphodiesterase 6A, cGMP-specific, rod, alpha [Source:MGI Symbol;Acc:MGI:97524]
Coordinates
chr18:61445567-61449372:+
Coord C1 exon
chr18:61445567-61445714
Coord A exon
chr18:61445715-61447786
Coord C2 exon
chr18:61447787-61449372
Length
2072 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGT
5' ss Score
10.29
3' ss Seq
TGCTTTCCTGTCCTTCACAGCTG
3' ss Score
10.8
Exon sequences
Seq C1 exon
GAGTTCTCCCGATTTCATGAGGAGATTACACCCATGCTGGATGGGATCACTAACAACCGCAAGGAATGGAAGGCGCTGGCTGATGAGTACGAAGCCAAGATGAAGGCCCTGGAGGAGGAGAAGCAGAAGCAGCAGGCAGCCAAGCAAG
Seq A exon
GTAGGTGGGTGGAGTCTTGGCCAGGTACACTTTCAGCACGCAGGACATGCGGGCTTGAACTGTGGTCGCCATTCTGTGAGGAAGGCCCTGAGCCTGCTGAAGGTGAAGTATTGTGGCCAAGCCATGCAGTCAGTATGTGGCAGAATCTGGTCCCTAGAGAGAGGTTGACAGATGCTCTAGGGTCCTGTAGTTGATCATAAGGTAGACTCCGATTCTAAGGCCGCAGACATTCGTGCCTGGAATTATTAGTTGGAAGGAATTTCAAAAGCCGACTTTCCAGCTGTTTGTCCACTTGAGTCCTAGCTTTACCTGAGGTTTGGTTTGTATACTACTAGTGAAAGAGGGCTAGCTATCCTTCACAGCACCCTTATTCAGTATGTGGTTGGAAAGATCTCCTGTGAACTCAAAGTGCATTTGACTTGGAAAACTATTAGTGGCAAATTCAGAACCGTTCCACTCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCGCGCGCGTGTGAAAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGGTCACAGGCCATCTAGCCTCAAGTAATGAATAAGAGACCCTATTTGAAATATATGGTGAGGACTGACACCTGAAGTTGTCCTTTGATCTTCTTCTATATGTGTACCATGGCATGCAACATCTGAACTCAAACATATGAATGTGCACCCACCCATCTCCCCTACACACACACACACACACACACACACACACACACACACACACACACACACTCATATGTAACCAGGTATGCTGGGGGTTGTGTGAAGTTAAACACAGGGCTACATCCTTGTAATCCCAGCACTCAGGAGACTAAAGATAGGAAAAGTACTTTGAATTTTAAGGACAGCCTTCTCTTAAAACATAGCAAAACAAGCAACTAAAACCCAATAACAAAAAGGGGTGGGGCTAGCATCAGAAAAGCGCTTGCTGTGCAAACCTGATAGCCAGATAGAGCAGAACCAGTCTGCACCTTCAGCGTTTCTACATCGGGATGGCTCATGGGGTAGCTCAGAGGCCTGGGGTACACAGAGTAGCAGAAACAAGAGACCTTGCCTCAGTAGGTGGAAGGGGGAGGACTGATTCTCAAAAGTGGTGCTCTGACCTCCACACGGGCTGTGGCAGGGGTGCCACCCCAACTAATAAATGTAATCAGAGAGATAGGGAGAGACAGAGACAGATTGGCAAAGGAAGAGAAGTTGGTCGGGGTGGAGCAGAGACTAGAAGCCAAGACTTCAAGGAACCAGAGCACAGGACTGATCCTAGCTTCAGATGGAATTTGTCTGGGCTCCCGTCACATGGCATCATACGGCATCATATGACACAATCGCCTCCGTCCTCCCCGAGTTATCTCTGTCTAGCTGTGTGTTCCGTTTCCTCACAGGACTTGGCTTCTTGTCCCTGCCATGGGCTGCCTGACTTTCCAGGCATGTGTCCTTCTGTTCTCAGCATAGACCCTGTCTAGTCCCCAGTTCTTCTATGAGCAGGCTGGGGGGTTATTTTAAAGAGCAGCTTTGAAGACAGGGCCACCCTTGCTGTCTCCCCAGGTTCTCTTATACGTCACTGCCTCCGTGGGTGGCTTTAGCTAGCCCATAAGGTGTCTTTGGGAAAAGGAGCAGGTTTGTGTAAGCGTGAGGCCTCCCATCTTCCTTTTGAAAACAGCAGTGCAGGCCTGATAAATTCTACTCCAGATCTAACAAACAAAAAGAGATTTTTCAGCTTTTCTTTTTAAAAAGTTCAAGATCTGGCCGTACTAGTAGACTGGATGAAAGTGGCTGGAGCAAACTGGGAACTGTCCCCTGGGAGTTCTATCCCCCAAGTCAGTCCCTACAGCTCCCAGGTGTCTCGCGGGTGTCTGTTGACATCAGTCACTCTGTGGGGCTTCTCAGTGGGGAAGGACCTCTGGTTCCTCTGCTTCTCCTGACTCCCCATCCGCTCTCTGCAGATGCCAAGCCTTGAACTTGGTCCCAAAGGGTCAAAGGCAGGTTTGCTGCAGCCTCCTCTGACCTGCTGTGTGCTTTCCTGTCCTTCACAG
Seq C2 exon
CTGCTTCCGGGAACCAGCCAGGAGGGAACCCCACTCCAGGGGGTGCACCTGCATCTAAGTCCTGTTGCATCCAGTAGCTGACTGCACTGCGAGCAGGGGGCACAGCCCTCAGGAAGGAGGAGGTCACCCTGGCACTGGACAGTTAAAGAACCAGGAGCTTGGAAGTGGTGGCAAACACAGCAGGCATCTATATCATCAAATGGTCTTAGACATTGGTTCTGTTCTGTTCTGTTCTGTTCTGTTCTGTTCTGTTCTGTTCTGTTCTGTTCTGTTCTGTTCTGTCCTGTCCTGTTCTGTTCTGTTTTAGACAGCTCTGGCTGGCCTGGAACTCTCTATGTAGACTGGGCTGGCCTCAAACTCACAGGCCTCCACCTGCCTCTGTGTCCTGAGTTCTGAGTTAATAAGCAAGCACCATCACACAGGGCTTAGAGATTGTGTTTAATTCTAAAAAGTCTATCGAGTCTAGCCTAATATTCTAGACTTCATATACTGACTTGATAATTTTTTGTTCTTATAATGCTTGTAATTCTTATAAGCTTTTTAAACTTAGTGTTTTATTATAAAAGTGTTCGCTAATTCCCAAAAGTACAGAATTATACATCAAATACCCACAAACTTACCCCAGATTTGAACATCAAGCTCTGGTCATGTATACTTCATGTGTCTTCACGTTCCTTTTCAATTTCTCTCTCCCTTTTCTCCTTCATCTAGTCCTCCCTCCCTCCTTCCCCCTACTTCCTCCCTCCCTCCTTCCCTTCCTTCCTTCCTTTCTGATTCCCACCATGTAGTCCCATGAAGCCCCAGCTTGCTTTAAACTCTCCATCCACTGACCTCTATGTTCACTACCACCCTTGGCTTAGCCGAGCTATTTATGAAAAATTTCCATACACATGGCTTCACTCCTCCACAGTCTTTAGAGTTTATGTATCTTTACAGGAATAAGCAGCATCTTTAAAGGTCACGCATCTTATGTGGTAGCACATTCGGGCAATCCCAGCACTAGGAAAAGAGAGAGGGGGAGGTCAGGAGTTTCAAAGGTCTCAGTCTATACAACACGACCAAACCTCAAGGGGAAAGTTACCCATCCTTAAAGGAACAGAGCTTTTTCTAGCACAACACTGTCACACGGAAGTGAAGGCTTCACACCCAGCTGTGGAGTAAATTCAGATGAGCCACAAACGGAGGACTCAGAGGACTGGGGGGTGGGGTGGAGGGGTGGGGGTGGGGCTTCAGCAGACATCGCCTTCAGGGGTTTCCTCAGCTGCAGGATATTCTGCATTTTTCAGGGGGATCTATGCCTGAGATGGACAAGTATGGTCACGTTGCCTAACCTGGATCAACTGTGGAAGGCCAGTCCAACTCCAGGTTAGAGCCTGTTTCCTAGGAAACCCAGCTGTGATGAAAACTCAGAATCAAGGACCCCTATGGTCCCAAAACTCTTTAAGAGATTATTTGTGCTGGGGGTGGTAGTCCCAGCATGCAGGAGGTAGAGGCAAGAGCATGTCCGTAAATTCCAGGCCAGCCTGGTTTACACAGAAAGTTCCAGGCTGGGCTACAGTATGCTACCTTGTTTCAAACAAGGGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024575-Pde6a:NM_146086:21
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.305 A=NA C2=0.859
Domain overlap (PFAM):
C1:
PF0023314=PDEase_I=PD(16.8=40.0),PF116803=DUF3276=FE(77.8=100),PF141951=DUF4316=PU(81.1=86.0)
A:
NA
C2:
PF116803=DUF3276=PD(9.5=23.1),PF141951=DUF4316=PD(15.1=30.8)
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:
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: