MmuINT0123161 @ mm10
Intron Retention
Gene
ENSMUSG00000004565 | Pnpla6
Description
patatin-like phospholipase domain containing 6 [Source:MGI Symbol;Acc:MGI:1354723]
Coordinates
chr8:3532003-3532427:+
Coord C1 exon
chr8:3532003-3532116
Coord A exon
chr8:3532117-3532351
Coord C2 exon
chr8:3532352-3532427
Length
235 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCAT
5' ss Score
4.89
3' ss Seq
TCTCCAACCCTCTGCCTTAGGTT
3' ss Score
8.62
Exon sequences
Seq C1 exon
GTGGAGGCACTGACCCGGCAGCCACGAGCCACCACTGTACACGCAGTGCGAGACACTGAGCTGGCCAAGCTTCCCGAGGGCACCTTAGGCCACATCAAACGTCGGTACCCACAG
Seq A exon
GTGCATCTTCTGGCTGGGGACCGCAGGGGCCGTGGCTTGTGTGTGTGTTTGCGCCTATGCGTGTGCGCGTGTGTGTGTGTGTGTGTGTGCGCGTGCGCATGCGCGCCTGGCTTTTCTAGTCAGGTTGCAGCCCAAGTAATGGTATTTCTAGCCTCCCAGGTGAAGGAAACAAAGGTGAGACCTTTCAGTCTCACTGAACACCATTCTCTTCCACCTCTCCAACCCTCTGCCTTAG
Seq C2 exon
GTTGTGACCCGCCTTATTCATCTGCTAAGCCAGAAAATTCTAGGCAATCTGCAGCAGTTGCAAGGACCCTTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004565:ENSMUST00000004681:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.105 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0002724=cNMP_binding=FE(40.7=100)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGAGGCACTGACCCGG
R:
GGAAAGGGTCCTTGCAACTGC
Band lengths:
188-423
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