MmuINT0120170 @ mm10
Intron Retention
Gene
ENSMUSG00000046854 | Pip5kl1
Description
phosphatidylinositol-4-phosphate 5-kinase-like 1 [Source:MGI Symbol;Acc:MGI:2448520]
Coordinates
chr2:32575718-32576851:+
Coord C1 exon
chr2:32575718-32575894
Coord A exon
chr2:32575895-32576650
Coord C2 exon
chr2:32576651-32576851
Length
756 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGT
5' ss Score
9.65
3' ss Seq
CTTGTGCCTCTTCCCATCAGATC
3' ss Score
9.86
Exon sequences
Seq C1 exon
GGCAAAGGCAAGCGCCCCTTTCGAAGATTGGGCACAGTGGTAACAAGAGCGTCGCGATTGGTCGTTCGCCATGCAGAGGCGGGGCCTGATTCCTGCATCTGGGCCTCCGAGACACCGCCAAAGCCAGAGAAGCGGCACCTGGGGGCGATGGCCACACCAAGCCTTAGGTCCCACGAG
Seq A exon
GTAGGTGCGGACCAGAGAGGGGACAAGAAAGGGAAGGGTGAAAGTCTGGCCATTACCTTGGCCAGAGGCTTGAACACCCCCCCGCCCCGTCTCTGCTCTGGGAAGATCAAGACACGCCCCACGGAGGTATGAAAGGGGGTAGCGATCTGGTGGGTGTCCCCCGGAGGTCTTCCTCAGTTTCCTCATCAGGAAAATTTGGATGATGAGATAAATTCCGTAAGGCTCCATAAGGACCTCAAGCGCTCAGCTTTGTACACAGGATGGGTCTCCAGTAGGAATGGGTGAGCTGGTATGACTTCAGCTTCCATTTGACCTGGTCCTTCTTGCTAGCACAGAGAAGCACAGCATAGAAGAGGAAACAGGGAAGACTGAATCTCCCAGCATCCCAGCGCCTGCTAGCAAGGCTTCTTGTGAAGGCAGCTCAGACGCAACAGTAGCAGCTAACATGTAACAGAGGAGATAATAAGGCTGGGTCTGACCTAAGGTCATGCAGCCTCTGGGAGTCATCAGATGCACCTGGGATTGACAGCAGAAGGCTGTTCCCACTCCATTTGCATACCATTTGCAGGTGGTTTTGGCCCCTCAAACACTGGGACTATAGCTATAGTGTTAGCCCTGTATTTTATGGTCAGGGAAGGTGAAGCAGAGAAAGATAAGCAGAAGATCCCTAATCGGTGGAAGTAGGATTTGAACCCATGCATTTCCCTTCTGAAATACTGCCACATGCTCTTTGTTTCTTGTGCCTCTTCCCATCAG
Seq C2 exon
ATCCCGGCCCACTCCCAGGAGGCTGGAAACAAGTCCATTTCCTCAGGGAGCCGCCGCGGCCTTCTTTGGCACCTCCGAGCCAGGCAGTCTAGAGTTGGCCTGTTTGAGGTCGGTCCAGGACATGAGCTGCATAGAATGACACGAATGATGCAGGAAGGGCTGTGGGCTGCCACCCAGGTCTCCAAGAACAACCCACCCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000046854:ENSMUST00000055304:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.582
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCGAAGATTGGGCACAGTGG
R:
GTGGGTGGGTTGTTCTTGGAG
Band lengths:
358-1114
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