MmuINT0117731 @ mm10
Intron Retention
Gene
ENSMUSG00000028073 | Pear1
Description
platelet endothelial aggregation receptor 1 [Source:MGI Symbol;Acc:MGI:1920432]
Coordinates
chr3:87752708-87753894:-
Coord C1 exon
chr3:87753766-87753894
Coord A exon
chr3:87752837-87753765
Coord C2 exon
chr3:87752708-87752836
Length
929 bp
Sequences
Splice sites
5' ss Seq
AGGGTGCGT
5' ss Score
7.22
3' ss Seq
CAGCCCCTTGTCTCCTGTAGCAT
3' ss Score
7.44
Exon sequences
Seq C1 exon
CCTGCCCGCCTGGTCGCTATGGCAAACGCTGTGTGCAATGCAAGTGTAACAACAACCATTCTTCCTGCCACCCATCGGACGGGACCTGCTCCTGCCTGGCGGGCTGGACAGGCCCTGACTGCTCCGAGG
Seq A exon
GTGCGTAGCAGCTTGTGTGGGGCAGTGTGCCCACTGCTTGGGTCGCTGCACTCCGGCTCCTCTCCTGGCCCTGGGCAGAGAGCGTCCCTCCCTCAGTTATCTGTAACATGGGGGGACCCTTCCATCACCTGCAGGCTGGGTATATACTATGTGTCTTGATCCAATCCCACTTCCCCTCCTGCCCCCAGTATGTCTTCCTCCTACCCACATGTCCATTCCTCTCCATAACCTGCTGAGGCCAGTCTGTTTGCCAGCATGGGTGTGGGGCTGTGGCCTGGAACATGGGTCCTTTTCCTCCCAGCGTGGCTGCTTTCTAGCTTTCTCGTATTATTATGTGTCTTCTTCCACATAACTCTATGATAGCAAAGTGACTGGCCTTAGGTAGCAGATGAAGCATGCTTTGAAGGGAGTGGGATGCTGCTGTCCAGAGAGAGCTAACTGCACTGCCAGGAGGCAAGGCATAAAGGAAGGGATCTTGCTGAAGGGTTTTTTTTTTTTTTTTTTTTCCATAGAACTCAGTAGCATTTACTGTTGGGTTATTTGCTAAGATCACACACAGAGATAATACAATAGGCCGGGTGTGTTAAACACGTCTGTAATCCCAGCACCCAGGCAAGAGGCAGAGGTTTGAAAACAGAAAAAAACAAACAAACAAACAAACAAACAAACAAAAAAAACAAGCCCAGCACTAAGCCCTCCAGGGGCAGTTGGGAAGCTCCAGTTCCCTAGCACTGGGTACATTATCTCCTCAGAGTCAAGTGCAGATGTCAGGTGGGTAGTGGGTCAGCTAGCTGGAGATGGACATTAGAGCCATGACCATGGAAATGCCCCTCGGAGCCTTCGTCTCCCTAAGAGGTGGCCAGGCTGAAAACTTCAGAGATACTGAGGGAATGGCCAGGTCTTGCCTGACAGCCCCTTGTCTCCTGTAG
Seq C2 exon
CATGTCCCCCAGGCCACTGGGGACTCAAATGCTCCCAACTCTGCCAGTGTCATCATGGTGGGACCTGCCACCCCCAGGATGGGAGCTGTATCTGCACGCCAGGCTGGACTGGACCCAACTGCTTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028073:ENSMUST00000172621:17
Average complexity
IR
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:
PF0005319=Laminin_EGF=PU(69.8=68.2)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(27.9=27.3),PF126612=hEGF=WD(100=29.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGGTCGCTATGGCAAACG
R:
CAAGCAGTTGGGTCCAGTCC
Band lengths:
246-1175
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