MmuINT0127507 @ mm10
Intron Retention
Gene
ENSMUSG00000044664 | Prss42
Description
protease, serine 42 [Source:MGI Symbol;Acc:MGI:2665280]
Coordinates
chr9:110799158-110800971:+
Coord C1 exon
chr9:110799158-110799420
Coord A exon
chr9:110799421-110800810
Coord C2 exon
chr9:110800811-110800971
Length
1390 bp
Sequences
Splice sites
5' ss Seq
GCGGTAAGA
5' ss Score
9.63
3' ss Seq
CTGCTGGTCTTTTTCATCAGCAC
3' ss Score
6.23
Exon sequences
Seq C1 exon
CCGAATCCAGTACAACGTCAAGGTGGGCGATCGGAGTGTCTACCGACAGAATACAAGTCTGGTGATTCCCATCAAGACCATCTTTGTCCACCCTAAGTTCTCAACAACTATCGTCGTTAAAAATGATATTGCTCTTCTCAAGCTCCAACACCCTGTGAATTTCACCACTAACATATACCCTGTCTGCATCCCTTCAGAGAGTTTTCCTGTAAAAGCTGGGACCAAATGTTGGGTGACAGGATGGGGAAAACTAGTGCCAGGCG
Seq A exon
GTAAGACTGGTGCTCAGAAGACCTTCTTCCTGGGGTAGAAACAAAAGATCCCAAGGGGCACAGAAGAGAAGCAGACTCCTTGGCAGGCATGTGTGTGTGTTTGTGTGTGTGTGTATGTGTGTGTGTGTGTGTGTGTGTGTGTTGTTGGGTAGGCAGTTTGGCAGAAATCAAGGTCATGGTCAGCTTAAGTGATCCTTGGTCTTGTGTTGAAATCTTTTGTCACAACGCAAACATCTGATGACAGCCCACAGAAGGTATCCCTCTCTCCTGGGAACTGGAAATGTGTCAAATCTCCTTTTGCAGATTTGTGGGGCAGTATGCTGAATGGTTATAGGAATTGCTACTTTCCCAGTGGACAAAGGCCAAATGTGATGGAATTCTCCTGTGTGGATATCCAGATCTGATTTATTTTATTTGGTGTGTTATAAGTGTTTTGCCTCCATGCATGTCTGTGTACCAAATGCCTGACTGATAGCTCTTGGGTGTCACCGCCCCCTGGGACTGGAGTTATATATGAGTTGTGAGTCTCCACACGCTGAGGGAGGTGAACCCAGGTCTCTTAACTGCTGAGCCATCTCTCTAGCACCTTGGGTGGATTTTGCCTCACGAAAGGATGATCTGCTGGCCAGCTTCTCAGTGGAAGTTCCTGCCTTGGTATTTATGGAGTTCCTTGTGCCTAGGGGAATTGGGTGAGCCACGGGTCTCTGTTGGTATGCATCTTATCCGTGAGAAGAAGTCAATTGCGATACCTTTTAGGGTTCTATCTCCTGAGAGCCTGTGATTGTGTTCTAGAAAGTGAAGAAAATTGGCTGGGTGTGGTGTTACGTGCAGAACTATGGATAGTTCGAGACTAGTCAGGGCTATGGAAAGACCCCATCTCACTGACAAATAAAGGATGGACAGGCTATCTCCTCTCTACCACACTGACATCAGTAATGAGTTTGATGGGCTGTCATTTCTTCATCCTCTCAGGTCTTGCTTCCTTTCAGAAATACTACTCTTCTTTTGTCTTAGTTTCCCCCCCTTGAAGCATGAGAATTGGACCCAGGGCCTTAAGTGTGCTAGTGAAGAGCTCTAGCACGAAGCTGTATTCCCTGCCCTTTCTACTTTTTCTTTTGAGGCAGAGCCTTGGACTCACTCACACTGTAGCTCAGGCAGGCCTTGCACTTGAGATTCTCCCACCTTGGCCTCCCATGGACTTACAGACTTAGGCCATTATGCCTGGCTCAATCCTGCCTGTTACTCAATGTTTTTCCTATCACCGTTTTTAGGTTTACTTTCTTCCGTGTCAGATGGGGACAATATTAACTTTTGTCCAGGGGGATTCTTGGGTGTTTGCATGCTTGCTGTCCACTGAGCAGATTTAGACGCTGCTGGTCTTTTTCATCAG
Seq C2 exon
CACCGGATGTTCCGACAGAAATCCTCCAGGAGGTGGACCAAAATGTCATCCTTTATGAGGAATGTAATGAGATGCTGAAGAAAGCTACCTCAAGTTCTGTGGATCTCGTCAAGAGAGGCATGGTCTGTGGCTATAAAGAAAGAGGAAAGGACGCCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000044664:ENSMUST00000035715:3
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:
PF0008921=Trypsin=FE(37.9=100)
A:
NA
C2:
PF0008921=Trypsin=FE(22.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAGACCATCTTTGTCCACCCT
R:
GCAGGCGTCCTTTCCTCTTTC
Band lengths:
349-1739
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