MmuINT0162704 @ mm9
Intron Retention
Gene
ENSMUSG00000000385 | Tmprss2
Description
transmembrane protease, serine 2 [Source:MGI Symbol;Acc:MGI:1354381]
Coordinates
chr16:97790015-97790676:-
Coord C1 exon
chr16:97790501-97790676
Coord A exon
chr16:97790111-97790500
Coord C2 exon
chr16:97790015-97790110
Length
390 bp
Sequences
Splice sites
5' ss Seq
ATGGTACGT
5' ss Score
9.89
3' ss Seq
TTTTGCTCTTCTTTAAACAGATC
3' ss Score
11.44
Exon sequences
Seq C1 exon
ACCCCTCAGCAGCCCGAGGTACTGGACGGCATTTGCGGGAATTCTGAGACAGTCTCTCATGTTCTATGGAAGTAGACACCAGGTAGAAAAAGTAATTTCCCATCCAAATTACGACTCTAAGACCAAGAATAACGACATTGCTCTCATGAAGCTGCAGACACCTTTGGCTTTTAATG
Seq A exon
GTACGTGAGACTCAGCCCACTAGAGGGCAGTAGCGCCCCCTGGTTGTGTGGATCAGAACTGGCTTCAGACATCACTAGTGTCCCTGGGGGACAACATCCTCTCCCGCTGAGGCCATCTGGTTGATAATTTGTAAAGATTGCTGGTTTTAAAAATGGTTAAAATTTTTTTAACTTATTTTATGTGCATGGGTGTTTTGCCTATAATTATGATCTGTGCACCATTTGCGTGCCTGGTTCCCACAGAGGCCAGAAAAAGGTGTCAAATTTCTTGAGACAGTTGTGGGCCACCATGTGAGTGTTGGGAATCAAACATGGGTCCTTGTGTTCTTAACTACTGAGCCATCACTCCCAAGACAACTGTTAACTCACCTTTTGCTCTTCTTTAAACAG
Seq C2 exon
ATCTAGTGAAGCCAGTGTGTCTGCCGAACCCAGGCATGATGCTAGACCTAGACCAGGAATGCTGGATTTCGGGGTGGGGGGCCACCTATGAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000385-Tmprss2:NM_015775:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.017 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(25.8=100)
A:
NA
C2:
PF0008921=Trypsin=FE(14.0=100)
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:
CTCAGCAGCCCGAGGTACTG
R:
CTTTCTCATAGGTGGCCCCC
Band lengths:
268-658
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: