MmuINT0120173 @ mm10
Intron Retention
Gene
ENSMUSG00000046854 | Pip5kl1
Description
phosphatidylinositol-4-phosphate 5-kinase-like 1 [Source:MGI Symbol;Acc:MGI:2448520]
Coordinates
chr2:32578109-32578604:+
Coord C1 exon
chr2:32578109-32578263
Coord A exon
chr2:32578264-32578479
Coord C2 exon
chr2:32578480-32578604
Length
216 bp
Sequences
Splice sites
5' ss Seq
GACGTGAGC
5' ss Score
5.28
3' ss Seq
ACCTCTGTTCCCACCTATAGCCA
3' ss Score
9.54
Exon sequences
Seq C1 exon
GGCTTCGAGCTGGGCACCTTGGCTGGCCCGGCTTTTGCACGGCTGAGGAAATCCATTGGCCTGACTGAAGAGGACTACCAGGCTACTCTTGGCCCTGGTGATCCCTACCTTCAATTCTTCAGCACCTCCAAAAGCAAGGCCAGCTTCTTCCTGAC
Seq A exon
GTGAGCTTGTAGCAAGGATGGGGCAGGATTGGGGCTCCGTTCCAGGCTGGCAGGATGGCTTTGGGGAGAGAGGGTCAGGGCCAGAGGAAGGTGAGATGAAGCAAGGGGGCGAGGTAGCCAGACACATCCATCCTGTGCAAAAGCAGGAGCAAGAGACTTGGTGGGAACCATTCCTGCCAAGTCTGGACAGTGAATGACCTCTGTTCCCACCTATAG
Seq C2 exon
CCACGACCAGCGCTTCTTTGTGAAGACCCAACGGCGCCACGAAGTGCATGTGCTGCTTGCCCACCTGCCCCGCTATGTGGAGCACCTGCAGCAATACCCACACTCCCTGCTGGCACGGTTGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000046854:ENSMUST00000055304:4
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=PU(12.2=46.2)
A:
NA
C2:
PF0150413=PIP5K=FE(15.4=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:
TTGGCTGGCCCGGCTTTT
R:
GTGCCAGCAGGGAGTGTG
Band lengths:
253-469
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