MmuINT0117734 @ mm9
Intron Retention
Gene
ENSMUSG00000028073 | Pear1
Description
platelet endothelial aggregation receptor 1 [Source:MGI Symbol;Acc:MGI:1920432]
Coordinates
chr3:87555776-87556241:-
Coord C1 exon
chr3:87556029-87556241
Coord A exon
chr3:87555865-87556028
Coord C2 exon
chr3:87555776-87555864
Length
164 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CACCCGTGTTTGTCCTGCAGATG
3' ss Score
11.93
Exon sequences
Seq C1 exon
GAAGCCAGGAGTCCTTCACCATAATGCCCACCTCTCCCGTGACCCATAACTCACTGGGTGCAGTGATTGGCATTGCAGTACTGGGAACCCTCGTGGTGGCCCTGATAGCACTGTTCATTGGCTACCGCCAGTGGCAAAAGGGCAAGGAACATGAGCACTTGGCAGTGGCTTACAGCACTGGGCGGCTGGATGGCTCTGATTACGTCATGCCAG
Seq A exon
GTGAGCTGCTGTGGGACTTTAAGTGATGGCTGGGCAGTAGGGGACTGCTGAATATGCTCCCCACCATGGGATGTGGGGTGGAAGAGTGGAGGGCATCAAGGAGGGGCAAACTGCTGTTGCCCTGGCCTCCTCCTGTCTACCTGGCACCCGTGTTTGTCCTGCAG
Seq C2 exon
ATGTCTCTCCGAGCTATAGTCACTACTACTCCAACCCCAGCTACCACACACTGTCTCAGTGTTCTCCTAACCCCCCACCCCCTAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028073-Pear1:NM_152799:20
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.042 A=NA C2=0.467
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PD(26.1=16.9)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGCCAGGAGTCCTTCACCAT
R:
GGTAGCTGGGGTTGGAGTAGT
Band lengths:
257-421
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: