MmuINT0120175 @ mm10
Intron Retention
Gene
ENSMUSG00000046854 | Pip5kl1
Description
phosphatidylinositol-4-phosphate 5-kinase-like 1 [Source:MGI Symbol;Acc:MGI:2448520]
Coordinates
chr2:32578936-32579113:+
Coord C1 exon
chr2:32578936-32578970
Coord A exon
chr2:32578971-32579057
Coord C2 exon
chr2:32579058-32579113
Length
87 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CTCCTGACCCCTGTTCCCAGAAG
3' ss Score
6.69
Exon sequences
Seq C1 exon
GCGTATACAGTCTGCGGGTAGCTCAGGGGAAAAAG
Seq A exon
GTGAGTGTAGCAGACAGAGGTGGCTCAGCAGTGGGGGCTGCTGGAGGGTGAGCTCGGGCTTCCCTCACTCCTGACCCCTGTTCCCAG
Seq C2 exon
AAGTACTTCATCATCATGCAGTGCATCTTCTACCCTACCAGCCGCATTTCTGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000046854:ENSMUST00000055304:6
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:
PF0150413=PIP5K=FE(4.0=100)
A:
NA
C2:
PF0150413=PIP5K=FE(6.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGTATACAGTCTGCGGGTAG
R:
CTCAGAAATGCGGCTGGTAGG
Band lengths:
89-176
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