MmuINT0120173 @ mm9
Intron Retention
Gene
ENSMUSG00000046854 | Pip5kl1
Description
phosphatidylinositol-4-phosphate 5-kinase-like 1 [Source:MGI Symbol;Acc:MGI:2448520]
Coordinates
chr2:32433629-32434124:+
Coord C1 exon
chr2:32433629-32433783
Coord A exon
chr2:32433784-32433999
Coord C2 exon
chr2:32434000-32434124
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-Pip5kl1:NM_198191:4
Average complexity
IR-S
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(12.4=46.2)
A:
NA
C2:
PF0150413=PIP5K=FE(15.4=100)
Main Inclusion Isoform:
NA
Other Inclusion 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
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: