MmuINT0123171 @ mm9
Intron Retention
Gene
ENSMUSG00000004565 | Pnpla6
Description
patatin-like phospholipase domain containing 6 [Source:MGI Symbol;Acc:MGI:1354723]
Coordinates
chr8:3537451-3538085:+
Coord C1 exon
chr8:3537451-3537520
Coord A exon
chr8:3537521-3537968
Coord C2 exon
chr8:3537969-3538085
Length
448 bp
Sequences
Splice sites
5' ss Seq
ATGGTGGGT
5' ss Score
6.18
3' ss Seq
CTGTGTATCCCACCGGGCAGGCT
3' ss Score
4.91
Exon sequences
Seq C1 exon
GACCTGTGGCTGCCTTACTTCAATGTGACCACAGACATCACTGCCTCTGCCATGCGCGTCCACAAAGATG
Seq A exon
GTGGGTGCCATCCTGCCAAGCCCTGCTACAACCTTGTTGGCCGGCTGTGTGGGGATGGGTTGTAAGGGGAGGGGCAGCTGAGCATCTGGGACGTTGTTAACACAAGTGACCGTCCACCTGGGCCCGTCCACCGATCACTAACCATCACCCACTAATGTCCCGAAGGCCCCAGGTATGTCCGCTCTCTGGGGGTGGGGAGCCGGGAGGCTTGTCGGACACCTCACCCCCTCCCGCCATCCCCCACAGGCTGCGTGTGGCGTTACGTCCGGGCCAGTGCCTCCTACTGTCCCTACCTGCCCCCACTCTGCGACCCCAAGGACGGGCACCTGCTGGTGGACGGGTGTTACGTTAACAACGTTCCAGGTCAGCGAGCCCACAGGCTGGCCGGGCCTCCGAGTGTGTCTGAGCGTGTCTGTGCGTGTCTGTGTCTGTGTATCCCACCGGGCAG
Seq C2 exon
GCTCCCTGTGGCGGTATGTACGTGCCAGCATGACGCTCTCGGGCTACCTACCCCCGCTGTGCGACCCAAAGGATGGGCACCTGCTCATGGATGGTGGCTACATCAACAACCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004565-Pnpla6:NM_015801:28
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:
PF0173417=Patatin=FE(13.8=100)
A:
NA
C2:
PF0173417=Patatin=FE(23.4=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:
GACCTGTGGCTGCCTTACTTC
R:
GGCAGGTTGTTGATGTAGCCA
Band lengths:
185-633
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: