MmuINT0117740 @ mm10
Intron Retention
Gene
ENSMUSG00000028073 | Pear1
Description
platelet endothelial aggregation receptor 1 [Source:MGI Symbol;Acc:MGI:1920432]
Coordinates
chr3:87759477-87760385:-
Coord C1 exon
chr3:87760224-87760385
Coord A exon
chr3:87759582-87760223
Coord C2 exon
chr3:87759477-87759581
Length
642 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
GACCTCTTCTCAACCCACAGCTT
3' ss Score
8.31
Exon sequences
Seq C1 exon
ATGTGTCCTTCCGGCTGCTGGCTGCAGTGCTGTTTTGTTACCGTGTGCCCTATCGCAGGCCTCTGCAATGCCACTTTGTCCCCTCCTCCTCCTGGCCCTAGGCCTGCGTCTGACTGGGACACTCAACTCCAATGATCCCAATGTCTGTACCTTTTGGGAAAG
Seq A exon
GTGAGAGGGGCCAAGCTTGATGTTCGTCCCACAGGGTGGCTCCTCCCGGGAATCTGTTTCTGGTCTCTTTGCACTCTCTGTGGTGTTTGACCTTCCCCACCTCTGCCCTTGTCTCATCTCTGTCCTGTCTTTGTCCCCAGGTTCCTCTGGGAGGGAGCCATTCATTGTAGATGAAGCAGAGGGGCTGGCTGTGGGTAGGTAGGGACAGGACAGGAAAACAGGGCCCTGGGTAGAGAAGCCAAAAGTCTTCAATGCCAACTGGGTCCAGACAAGTTCAATCTTCCCGTGTGCATGTGTGCATACGTGTGCATGTGTGTGTCCCCGTATCCGTGTGTGTGTGTGTGTGTGTGTGTGCATGCATGTGCGTGCCTGTGTCTGTGTGCGTGTGTCTGTGTGTGTCCGTGTGTGTCTGTGTGTAAGGCTTTGGCCCCTAGGATGAGAAAATAGCTCTGGTAGGAGGAGTTCTAGAACGTTCCAGCTCTAGAAGCCTCTACACAGGACAGATAGGGAAGGGTAGGAGGAGGAAGCCCAAATATTGAGTACTGATTCTCTCCATGGTGAAGCCTGGCCTTGGCGTTCTGCTGCGCGGTGCCAGCTCCAGTTTCAGGCTGGCCTTGCCCCTGACCTCTTCTCAACCCACAG
Seq C2 exon
CTTCACCACGACCACTAAGGAGTCCCACCTGCGCCCCTTCAGCCTGCTCCCAGCTGAGTCCTGCCACAGGCCCTGGGAGGACCCCCACACCTGTGCCCAGCCTAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028073:ENSMUST00000172621:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.004
Domain overlap (PFAM):
C1:
PF075468=EMI=PU(12.3=28.1)
A:
NA
C2:
PF075468=EMI=FE(47.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGTGTCCTTCCGGCTGCT
R:
GTAGGCTGGGCACAGGTGT
Band lengths:
267-909
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