MmuINT0123155 @ mm9
Intron Retention
Gene
ENSMUSG00000004565 | Pnpla6
Description
patatin-like phospholipase domain containing 6 [Source:MGI Symbol;Acc:MGI:1354723]
Coordinates
chr8:3523758-3524166:+
Coord C1 exon
chr8:3523758-3523867
Coord A exon
chr8:3523868-3523998
Coord C2 exon
chr8:3523999-3524166
Length
131 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGG
5' ss Score
7.13
3' ss Seq
ACTAGTCCTGCCTTACCCAGACC
3' ss Score
5.56
Exon sequences
Seq C1 exon
GCTTGCAAGGTGGCCCTCGTTCTGATTTTGACATGGCCTATGAACGTGGACGGATATCTGTTTCTCTTCAAGAAGAGGCATCTGGGGGACCTCAGACAGCATCCCCTAGG
Seq A exon
GTGAGGCCTTCTCTCTTCTCCAGTCTTACCACAACCCCCCTTTCAGAACTCTGGCCTTGGCCAGTTGTCAAGTCACTTGAAAAGGTCAGTTGGGAGGGCACATGGGAAATCACTAGTCCTGCCTTACCCAG
Seq C2 exon
ACCCCCACTCAGGAGCTCCGGGAGCAGCCAGCGGGTGCCTGTGAATATAGCTACTGTGAGGATGAGTCAGCCACAGGCGGATGTCCCTTTGGGCCCTACCAGGGCCGCCAGACAAGCAGCATCTTTGAGGCTGCAAAGAGAGAGCTAGCCAAGCTGATGCGGATTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004565-Pnpla6:NM_015801:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.946 A=NA C2=0.214
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:
GGTGGCCCTCGTTCTGATTTT
R:
GCTAGCTCTCTCTTTGCAGCC
Band lengths:
251-382
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: