MmuINT0117086 @ mm9
Intron Retention
Gene
ENSMUSG00000024992 | Pde6c
Description
phosphodiesterase 6C, cGMP specific, cone, alpha prime [Source:MGI Symbol;Acc:MGI:105956]
Coordinates
chr19:38225078-38226084:+
Coord C1 exon
chr19:38225078-38225152
Coord A exon
chr19:38225153-38226019
Coord C2 exon
chr19:38226020-38226084
Length
867 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAAT
5' ss Score
5.83
3' ss Seq
ACAATCTCCTTTCTTCCTAGGAA
3' ss Score
10.4
Exon sequences
Seq C1 exon
GAATTTTACGATGAGTGGCCAATCAAGCTTGGAGAAGTTGAGCCTTATAAAGGACCAAAGACTCCAGATGGCAGG
Seq A exon
GTAAATATTTTCTGTGCTGTCTGTGTATGATGCCAAGAGACTGAAGTGCCCAGAGGAGAGACATTTCGGAGGGAACCTGCCTGTCCCTCTCTGTCGTGTACAGCGGGGTGGGTCTGTGGGTCTCGCATGAAGGGAGGCATCAGAGCCACTGGAACAACATTGTGAGATGTGCTCGGGGCCCTTTCAGCTGTTGACCCAAGAATAACTGAAACAAGGGTAGATGGTCACTTTCCTGGGGGCCAGGTTAGATTTACAGCCACACTCAACTGCAAGCTTCATGGGGGGCAGGAAGTGTGTTTGCTTCTGTAACACCATATCCTCCGACCATGAAACCCAGAAACTGACAAGTTTGTTGGGGCCTCGGATTCCTCACCTGCCCCGTTCCCTTCCAACATTGACAATGGATCCATTAATTTCTGTTGTGGAGGTGCCTGCTGAGATTAGCCAGTGAGAAAAGACCTGTGTGCTTACCACATGATAGATGTCTGTTTGCAGTTGATAAAGTACGTGATTTTTTTTCCCTAATGAAGTCATTAATGTCAGCTACTTCTGGGCAACAAAAAGCAATCAGTTAAAAGTAAAGGCAGATTTCCTGGTGGTTTAGTAATCAGAACCCCCCAAAAGCTATTTGGGTCAATTCAGCTTTTTTAAATGACAGTGAACTCACTCTGTGTGTGTGTGTGTGTGTGTGTGTGACAGATTACAAGCCTGTGACTAATACATGAAGAGTTTAGTAATTGACATTATTCAGAAAACAGTGGCTAGGAAATTAGGTACTATTTATAAGAATTATAAAGCACACATTCTTCAGTGAAGATTATTTTCTCTGGGAATTAATGTTGTGCCCACAATCTCCTTTCTTCCTAG
Seq C2 exon
GAAATCATCTTCTATAAAATCATCGATTACATTTTACATGGAAAAGAAGAGATCAACGTGATTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024992-Pde6c:NM_001170959:5
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(13.5=100)
A:
NA
C2:
PF0159021=GAF=FE(11.8=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:
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: