MmuINT0162792 @ mm10
Intron Retention
Gene
ENSMUSG00000059406 | Tmprss9
Description
transmembrane protease, serine 9 [Source:MGI Symbol;Acc:MGI:3612246]
Coordinates
chr10:80897844-80898321:+
Coord C1 exon
chr10:80897844-80898106
Coord A exon
chr10:80898107-80898184
Coord C2 exon
chr10:80898185-80898321
Length
78 bp
Sequences
Splice sites
5' ss Seq
GAGGTATAC
5' ss Score
6.64
3' ss Seq
CCTATCCCCGGATCCCACAGGCT
3' ss Score
7.44
Exon sequences
Seq C1 exon
CTATGGGGACCCTATGCAGTGGGCGGCCTTCCTGGGCACCCCATTCCTGAGCAGCACGGAGGGCCAGTTGGAGCGCGTGGCACGCATCTATCGCCACCCGTTCTACAACATCTACACACTGGACTATGACGTGGCACTGCTGGAGCTGGCGGGACCCGTGCGCCGCAGCCGCTTGGTGCGACCCATCTGCCTACCAGGTCCCGCAAGGCCCCCTGACGGCGCTCGATGCGTCATCACCGGCTGGGGCTCGCTGCGCGAGGGAG
Seq A exon
GTATACACGCATGCGTCAGGCGCAGCCCAGGGGGCGTTGGAGACACTCCCCACCTACACCTATCCCCGGATCCCACAG
Seq C2 exon
GCTCCATGGCGCGGCAGCTGCAGAAGGCCGCAGTAAGGGTCCTCAGTGAACAGACATGTCGCCGCTTCTACCCAGTGCAGATCAGCAGCCGTATGTTGTGTGCAGGCTTCCCACAGGGTGGCGTGGACAGCTGCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000059406:ENSMUST00000219817:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(38.9=100)
A:
NA
C2:
PF0008921=Trypsin=FE(19.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACCCATCTGCCTACCAGGTC
R:
AACATACGGCTGCTGATCTGC
Band lengths:
181-259
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