MmuINT0117030 @ mm9
Intron Retention
Gene
ENSMUSG00000024575 | Pde6a
Description
phosphodiesterase 6A, cGMP-specific, rod, alpha [Source:MGI Symbol;Acc:MGI:97524]
Coordinates
chr18:61413957-61416703:+
Coord C1 exon
chr18:61413957-61414100
Coord A exon
chr18:61414101-61416637
Coord C2 exon
chr18:61416638-61416703
Length
2537 bp
Sequences
Splice sites
5' ss Seq
TTGGTGCGT
5' ss Score
6.18
3' ss Seq
CTCTGCTGTTTTGGGAACAGAAA
3' ss Score
6.27
Exon sequences
Seq C1 exon
TCTTTGACTCAGTTTCTGGGATGGTCAGTCTTAAACCCTGACACCTACGAGTCCATGAACAAGCTCGAGAACAGGAAGGATATCTTCCAGGACATCGTGAAATATCACGTGAAGTGTGATAACGAAGAAATCCAGAAGATCTTG
Seq A exon
GTGCGTGGTCGTCTTGTTGCTTGCTTTCACTGTGGTAGAGAATGTCAGGGAGATGTGCCAGCCAGTGGCCATGTAGGAAACCCATGAGGCAGAGCCTGGGATGAGTGGGTTCAGCTTTGTTCTCTCCCATGTAGTACAGAGGTCTGACAGGCCTCAAGGCCGAACAGATAGATAGGTGAGCACCAGAGACTAGCCAATAATGGCTGCCTGAGGAACAGTATCTCTTGCAGGGTCACCTCTGACTTGGAGGCCTGACAGCACCATAGACTCCACTGTCCTCTGGGCTCAAGACTGGCTTGGCACTAGAGACAGGGGCAACTAGCCTCAGCTCTTAGTCTGGCAGGAGGCTTTATCTGGCAACTCTGTGGATCAGGAGCCATTTCTCAGAGTCTCTCTTCTATACGGTCACTATAGGACCCACCCATGGAGTGAGCAAAGCAGTGGGTTCAGAGAGAATATGAAGCTTTCCCATAATTACACTGCTTTGTAATTTAGGGCTGGAGGTGCAGAGTGTGTGCTTAGCACGCATGGAGCCCTGGGTTTGATACTGAGTAACTGCACACTCTAAAGCACGACAGAGCATCTGGTAGATGGAGGGTTGGGAGTTCAAAGCTATCTTTGGTTGCATAGTGAATTTGAAGCAAGCTCGAGATGCATAAAATCCTGCCTCAAAACAAAATATGATTTACACAGCACCCACGAATATGTTTGAGGTTTTGTATGCATCGGCCTGGTTAGGGGTACAGGGAAGCACTTCTTACCTACTGCAGAGATGAAAAAAAAATATGAAGCCCCCCCTCCCCTCCCAAGAGGGAGGGGACTTAGCCTCAAATCACCTACTCTGAGAAGAGTTCACAGTTCACATTTGTTAGGAAAACGAACTACTTCTCTGTGATCTTTCTTAATGGGTGCCTGGGGAGATGGTGGGCACCCCATCAGGAAAGTTGTTCAAGTAGAAGCTGGGTGCTCGAGTATCGGGGTGCAATTGTGAATGGGAAGCCAGATATGTGAGGACTGGTGGCTTATTGTTCCTGGGAGATTGGTGTTAAATTAACCAAGATCCAAAAACCAAACTGAGTTAGCCAAATGGCTTGGGATAGGATACCCAGCTGAGATCCCAAGACCTCACACGTTGAAACACCCCAGGCCGATGTTCTCAGAGGTCTCTCATTTCCTTCTCTCTTTTGTTTTTGGAGGTGTAACTAGTCCAGGCTGGCCAGTCTTCCTACCTCTGGCTTCCAGCCCTGGGGTTCCATGTGTGTTCTACTATGCCCAACCTCAGATAAGGACTCACATAGCCCAGGCCATGCCCTTGAACTACTGATCCTCTTGCCTCTACCTGAGGTTGCATGTGTACACAACTATGCCCAGGTTATGCAGTAACCTGGGGCATGCTGGGTAAGGTCTCCACTACTGACCTATGTTCCCAGCCAAAGGCCAGTTCTTAATCTTAGAAGATGCCAGAGAAGTTTTGATTATTTCTTATCCATTAATGGTCAATTCATAGGAGAAAATACGAAGTTTAGATGAAATGCCTTGTGGTTTGACTCAGGCCATAATCCCAGTCAAATGATGCATATGTGGACCAGAAGGATATGCAGACTCTATGAACCAGTTGGAAGTTAACAGATTCCACTCTGGATCAAGAAATCACAAACAATTAACTGGGTTGCTTTATCTGGCACAAAGGAAAAAAAAATAGGTCCAGAAGGGGAAGACACTCACCTCAGGTCACACAGCAAAGGAAGGCAAATCAAATGAAATGACCACACCTTCATTATTCTCGGTCACTAGGAACAATAAAAACATAAATGGCAATATTGCTAAGTACTGTACTGTGACAATAATTTCAGTACTTTATTTTAGTTGTACTTTTATTTGTTCAGAGACGGTTTTATTATATAGCTTGGGCTGAACTGAATTTCGCTATATAGCTTACACTAGCCTCAAGTCTAACTTCTTGCTATAAACTCTGAGCGCTGGGATTACAGATGTGCTCCTCTATATCTGGCTAGTTCACATATTCTGTTTAAAAACAAGAACCAGGCATGGTGGAGCATACATACCTACAGTCTCAACACTGGGGAAGCAGGGGTTGGAGGATGGATTGTGCAGGTCAGCAAATCTGAGCCAGCCCGGACTGCACAGTGAGACCCTGTCTCCAAAAACAAAGTCCTGAGGGTGTAGTGCAATGCTAAAGTGCTTGCCTGGTCTGGGCAAGGCCTGGTTTCCATCACACACACACACACACACACACACACACACACACACACACACACACACAGCATGAAAAATCGGTTACAGGTTTTATTATCCCCATTTAACAGAAGAAGGAGCTGAGATTCAGGCATTCAGTAACACAGCTAGACTGCGACAACCTGAATTTGAATGTAGGTCTCCAGGGCTCCGGAGCTGAACAGCCTTCTGCTCCGGGCGCTTCTGCTGGAGAAGGGGCCAAAGCAAACGCGGGAAGTGGAGGTCTCCTTGGGTTCTTGAGGCAATAACCTGTTGCATTTTCTCTGCTGTTTTGGGAACAG
Seq C2 exon
AAAACCAGAGAGGTGTACGGCAAAGAGCCGTGGGAATGCGAGGAGGAGGAGCTGGCTGAGATCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024575-Pde6a:NM_146086:10
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=PD(5.1=18.8)
A:
NA
C2:
NO
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: