MmuINT0120171 @ mm10
Intron Retention
Gene
ENSMUSG00000046854 | Pip5kl1
Description
phosphatidylinositol-4-phosphate 5-kinase-like 1 [Source:MGI Symbol;Acc:MGI:2448520]
Coordinates
chr2:32576651-32577925:+
Coord C1 exon
chr2:32576651-32576851
Coord A exon
chr2:32576852-32577871
Coord C2 exon
chr2:32577872-32577925
Length
1020 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAAT
5' ss Score
5.43
3' ss Seq
CCCATTACCAACCCCTGCAGGGA
3' ss Score
6.72
Exon sequences
Seq C1 exon
ATCCCGGCCCACTCCCAGGAGGCTGGAAACAAGTCCATTTCCTCAGGGAGCCGCCGCGGCCTTCTTTGGCACCTCCGAGCCAGGCAGTCTAGAGTTGGCCTGTTTGAGGTCGGTCCAGGACATGAGCTGCATAGAATGACACGAATGATGCAGGAAGGGCTGTGGGCTGCCACCCAGGTCTCCAAGAACAACCCACCCACG
Seq A exon
GTGAATGGCCCATCCTGTCTCAGACACCTCAAACCTAGCTGGCAGTCTATCTCACTAAAAGGTTGACACTGGTAATCAGAGAGGCCTACCAAGAAGAGGAAGGCAGGGATTTGTGTCAGGAAGCAGAAATTCTGAGTTGAAAAGCTGGAAGAGAAGTCCAGGAGGTCTGAGGGACACCCTGCTTAAAGTGGTGGATGTATGGCCTCTGTCTCTCTGGGCCTCAAGTACCCCTATCTGTATAATGGGTGAAGCCCCTGGGCCCTACCAGCTTGAATGGTTAAGAAGGGACCCCCACCCCCACCCTGCCCAATCCAGTCCATCCTCCCTGGAGCCTGTCAGGCTGGGGCCAAGCTGGCTCAGCAGAAAGCATCACCCAGCTGCTAACTCAGCAGCCCAGTCGCCTGGGGAGCCTTTATGTTGTCCGCGTGTGTGCACGTATGCACAGTTGAAATACAAGATCTGGAGGGGGTTCTCTGGAACATAGCCTGACCCTCATCACCTGCAGGAAGTATCCTCGGGACTGAACACAGCCTGGAGATATGGCTGCCTACAGAGCTGGCTGTTGTAGCCTGCCTCTGGCCTCCAGGGCACTTCCAGAATGGGGTTTCTCCTCTCCACACACCTTCAGATTTCCACTCAGAGGTCACCTGCCCCGGGCACCCTTCCCCAGTCAGACTCTCCGAGGCTTTCCCCTGGCATCACTGGCCCCTTTCAGGAGGATGCAATCTGGCTGTACACAGCCTGCATGAGTATTTGAAAGTATGCACCAGGCTTGAACTTGGTGCCTGGTCCTGAAGATCCAGATGTGGGTGATAACGCCCATGGGGCCCTGCCTTAGGTCATCCCCATCCTTCCTCCAGCCCTGGGTGAACCAGAATCTCAAGCGCCCAATTTAAGCTAACAAGACTTGTCAGTTCCCTGTTTGCTAAAGGAAAGGGCAAGGCCCCGTGCTGGACACACAATCTAGGTAGGCCATAGCAGACCCAGACTTTCTCTGAAACCCATTACCAACCCCTGCAG
Seq C2 exon
GGACCTACTACCCAGAAGGATTACCTGGAAGTCATGACCCAAGTTCACGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000046854:ENSMUST00000055304:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.582 A=NA C2=0.611
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CCCACTCCCAGGAGGCTG
R:
CTTCGTGAACTTGGGTCATGACT
Band lengths:
246-1266
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