MmuINT0123165 @ mm10
Intron Retention
Gene
ENSMUSG00000004565 | Pnpla6
Description
patatin-like phospholipase domain containing 6 [Source:MGI Symbol;Acc:MGI:1354723]
Coordinates
chr8:3534832-3535630:+
Coord C1 exon
chr8:3534832-3534895
Coord A exon
chr8:3534896-3535461
Coord C2 exon
chr8:3535462-3535630
Length
566 bp
Sequences
Splice sites
5' ss Seq
TAGGTGTGT
5' ss Score
4.3
3' ss Seq
CCTCCCTCATTATATCTCAGCAT
3' ss Score
5.94
Exon sequences
Seq C1 exon
GTCCCACGCTCCTCCTTAACAGTGACGTCATCCGGGCACTCCTGGGGGCTTCAGCACTGGATAG
Seq A exon
GTGTGTGGGGGTTGGGGAGTGGGGCTGGAAGGGCAGAAGGCCTGTGTTGGACATTCTTTCAGATTGGGCTGGAGAACTAGGCTTCTGAATCGAGGAGTCTTGCCTGTCGGATCAATAGGGAGACGATGTGGGGCAAATCCCTTTTGGTAGCAGGGGTGTCAAATTGGAAACCCAGGGGCCATATGCAGCTCTTATAGTTGTGAGATACTGTGGCTCAAAGCAAACTTAAAATATTATGAGGATTTTAAAAAAATTGTTTGGGTTTTTTTTTTTCTTTGTAACTTGCTTATGTGGTTCTTGAGCATTAACATTGTTGATTTCATGTGGCAAAGTAATGCAAAACAAATATATGTGAAAATAAATATATATATATACATATATATATATGCCTTTGCAACACCTGAGTCCCCATTTCAACCCCACTCCCTGCCTTGGCGTGCATTTTAATTGTTGGGACCTGGAATTATCTAAATATTCCCAGCAGTAGAATTGCACTATCTCTATATTGGGAGAGGTTGTGGGACTCCAGGCCGGCTCCAGGATGACCCTCCCTCATTATATCTCAG
Seq C2 exon
CATTCAAGAATTCCGGCTGTCAGGGTGGTTGGCCCAGCAGGAAGATGCCCATCGCATTGTGCTCTACCAAACTGACACATCCCTGACGCCTTGGACCGTCCGTTGTCTGCGCCAGGCCGACTGCATCCTCATTGTGGGCCTGGGGGACCAGGAACCCACTGTTGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004565:ENSMUST00000004681:22
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:
NO
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:
CCACGCTCCTCCTTAACAGTG
R:
CTGGCCAACAGTGGGTTCC
Band lengths:
230-796
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