MmuINT0162665 @ mm10
Intron Retention
Gene
ENSMUSG00000037129 | Tmprss13
Description
transmembrane protease, serine 13 [Source:MGI Symbol;Acc:MGI:2682935]
Coordinates
chr9:45344914-45345378:+
Coord C1 exon
chr9:45344914-45345056
Coord A exon
chr9:45345057-45345225
Coord C2 exon
chr9:45345226-45345378
Length
169 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CCTCTGGCTCTTCCTTGCAGGGA
3' ss Score
10.88
Exon sequences
Seq C1 exon
AGAAGACATCTCCCTTCCTCCGAGAGGTTCAGGTCAACCTCATTGACTTCAAGAAGTGCAATGACTACTTGGTCTATGACAGCTACCTTACCCCAAGGATGATGTGTGCCGGGGATCTACGAGGAGGGAGGGACTCCTGCCAG
Seq A exon
GTGAGGTCCTTGTGGGTGGGGCTCAGGTCTCATGACCCTGGAGGTGGGAGAAGTTGGAGTGGTAGGATCAATATGGAGGTCAGAGAGTAGAGAGCCGCTCTTTCCTGACTTGGACCCATCCCCCTCCCTTTTGCACCAGACCGACTCACCCTCTGGCTCTTCCTTGCAG
Seq C2 exon
GGAGACAGTGGAGGACCTCTCGTCTGTGAGCAGAACAATCGCTGGTACCTGGCAGGTGTCACCAGCTGGGGCACAGGCTGTGGCCAGAAAAACAAGCCTGGTGTGTACACCAAAGTGACAGAAGTACTTCCCTGGATTTACAGAAAGATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037129:ENSMUST00000034597:11
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(20.5=100)
A:
NA
C2:
PF0008921=Trypsin=PD(19.7=88.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAAGACATCTCCCTTCCTCCG
R:
AGGCTTGTTTTTCTGGCCACA
Band lengths:
242-411
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