MmuINT0123154 @ mm10
Intron Retention
Gene
ENSMUSG00000004565 | Pnpla6
Description
patatin-like phospholipase domain containing 6 [Source:MGI Symbol;Acc:MGI:1354723]
Coordinates
chr8:3523258-3523867:+
Coord C1 exon
chr8:3523258-3523341
Coord A exon
chr8:3523342-3523757
Coord C2 exon
chr8:3523758-3523867
Length
416 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGG
5' ss Score
5.63
3' ss Seq
TTCCTCTCCTCCACGCATAGGCT
3' ss Score
7.28
Exon sequences
Seq C1 exon
GGGATCCCGTGAAGCCCACATCCTTAGAAGCACCCCCAGCCCCGTTACTGAGCCGCTGCATCTCCATGCCAGTAGACATCTCAG
Seq A exon
GTTTGGAGCCCTGGTGGGCGGGAAGGAAAGGATGGATAGTACGGGAAGGACCATCAAGGGTCTAGATTTGAATCTGGGACGTGCTGGTTTCAGTCCTGATTTTGTATCCTTATCTACAAAATGAGTGTATAGATCCTACTTCCTTGGTTCTTGGTTTTTTTGGTGGATATGCTCTGCAATTGTTCTCCTCCCAACTGTGTTAAGATGCAGAGGTAAAGTGCAGTCATTGGCTAGTCATGTCTGTCATGGTCGCAGCATTAAATGGAGTTAATATTGGTATAGCTGTGGTCACTAACCTGTCTTTTTTACTTATTTACTTTGGAGCTGGGGGTAGAACCCTGGACATGTTCTAGCCAAAGACTTCATCGTTGATCTCCACCCCAGCTACATCTTTATTTCCTCTCCTCCACGCATAG
Seq C2 exon
GCTTGCAAGGTGGCCCTCGTTCTGATTTTGACATGGCCTATGAACGTGGACGGATATCTGTTTCTCTTCAAGAAGAGGCATCTGGGGGACCTCAGACAGCATCCCCTAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004565:ENSMUST00000004681:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.448 A=NA C2=0.892
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:
GATCCCGTGAAGCCCACATC
R:
CTAGGGGATGCTGTCTGAGGT
Band lengths:
191-607
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