MmuINT0120170 @ mm9
Intron Retention
Gene
ENSMUSG00000046854 | Pip5kl1
Description
phosphatidylinositol-4-phosphate 5-kinase-like 1 [Source:MGI Symbol;Acc:MGI:2448520]
Coordinates
chr2:32431339-32432371:+
Coord C1 exon
chr2:32431339-32431414
Coord A exon
chr2:32431415-32432170
Coord C2 exon
chr2:32432171-32432371
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
GGCCTCCGAGACACCGCCAAAGCCAGAGAAGCGGCACCTGGGGGCGATGGCCACACCAAGCCTTAGGTCCCACGAG
Seq A exon
GTAGGTGCGGACCAGAGAGGGGACAAGAAAGGGAAGGGTGAAAGTCTGGCCATTACCTTGGCCAGAGGCTTGAACACCCCCCCGCCCCGTCTCTGCTCTGGGAAGATCAAGACACGCCCCACGGAGGTATGAAAGGGGGTAGCGATCTGGTGGGTGTCCCCCGGAGGTCTTCCTCAGTTTCCTCATCAGGAAAATTTGGATGATGAGATAAATTCCGTAAGGCTCCATAAGGACCTCAAGCGCTCAGCTTTGTACACAGGATGGGTCTCCAGTAGGAATGGGTGAGCTGGTATGACTTCAGCTTCCATTTGACCTGGTCCTTCTTGCTAGCACAGAGAAGCACAGCATAGAAGAGGAAACAGGGAAGACTGAATCTCCCAGCATCCCAGCGCCTGCTAGCAAGGCTTCTTGTGAAGGCAGCTCAGACGCAACAGTAGCAGCTAACATGTAACAGAGGAGATAATAAGGCTGGGTCTGACCTAAGGTCATGCAGCCTCTGGGAGTCATCAGATGCACCTGGGATTGACAGCAGAAGGCTGTTCCCACTCCATTTGCATACCATTTGCAGGTGGTTTTGGCCCCTCAAACACTGGGACTATAGCTATAGTGTTAGCCCTGTATTTTATGGTCAGGGAAGGTGAAGCAGAGAAAGATAAGCAGAAGATCCCTAATCGGTGGAAGTAGGATTTGAACCCATGCATTTCCCTTCTGAAATACTGCCACATGCTCTTTGTTTCTTGTGCCTCTTCCCATCAG
Seq C2 exon
ATCCCGGCCCACTCCCAGGAGGCTGGAAACAAGTCCATTTCCTCAGGGAGCCGCCGCGGCCTTCTTTGGCACCTCCGAGCCAGGCAGTCTAGAGTTGGCCTGTTTGAGGTCGGTCCAGGACATGAGCTGCATAGAATGACACGAATGATGCAGGAAGGGCTGTGGGCTGCCACCCAGGTCTCCAAGAACAACCCACCCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000046854-Pip5kl1:NM_198191:1
Average complexity
IR-S
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
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
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:
CTCCGAGACACCGCCAAAG
R:
GTGGGTGGGTTGTTCTTGGAG
Band lengths:
273-1029
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: