MmuINT0162787 @ mm9
Intron Retention
Gene
ENSMUSG00000059406 | Tmprss9
Description
transmembrane protease, serine 9 [Source:MGI Symbol;Acc:MGI:3612246]
Coordinates
chr10:80354902-80356002:+
Coord C1 exon
chr10:80354902-80355073
Coord A exon
chr10:80355074-80355730
Coord C2 exon
chr10:80355731-80356002
Length
657 bp
Sequences
Splice sites
5' ss Seq
CCAGTAAGG
5' ss Score
5.74
3' ss Seq
CTGAGGTCCTGTCTCTGCAGCAC
3' ss Score
7.68
Exon sequences
Seq C1 exon
AGTGTGGGGCCAGACCCGCCATGGACAAGCCCACTCGGATTGTGGGCGGGATCAGCGCCGTGTCTGGGGAGGTGCCCTGGCAGGCCAGCCTGAAGGAAGGACCCAGACATTTCTGCGGAGCCACCGTGGTGGGTGACCGCTGGCTGCTGTCTGCCGCCCACTGTTTCAACCA
Seq A exon
GTAAGGCCTCCCAAGAGCCCTGATAGCAGTCCCTCACTGCATGCAGCAGGCACCAACTAGCTAGTGTGGTGCTTTCCTGTCAGTCGGGGCTCAAAATTGACAAACCAAACCAAGCAAGACAATAAACAGGAAGCACTTATTGTTCGCTGAATGCACATACAATGGGGGTCGCCCAGAACCACAATCGCTCTGGCTCTGGCTGCTCCTCGCTCTGGCTCTGGCTCTAGCTCTGGCTCTAGCTCTGGCTCTGGCTCTAGCTCTGGCTCTAGCTCTGGCTCTAGCTCTGGCTCTGGCTCTGGCTCTAGCTCTGGCTCTAGCTCTGGCTCTAGCTCTAGCTCTGGCTCTAGCTCTGGCTCTAGCTCTAGCTCTGGCTCTGGCTCTAGCTCTGGCTCTGGCTCTGGCTCTAGCTCTGGCTCTAGCTCTGGCTCTAGCTCTGGCTCTGGCTCTGGCTCTAGCTCTGGCTCTGGCTCTTCTAGCTCTGGCGCCCTGGCGCTCTGGCGCTGGCTGGACAGCAAGGGGATTCTGACCTACAACATTGAAAAAGTTGCTAGGGTCTCGGTCAGAGTGTCAAAAGCAAAGTCCCAAGGGTGCATGCACTCTGCGGCAGGGCCTTTTCCGGGGGTGCGGGTGGGAGTGCCTGAGGTCCTGTCTCTGCAG
Seq C2 exon
CACCAAAGTGGAGCAGGTGCAGGCGCACCTGGGCACCGTGTCCCTGCTGGGTGTCGGCGGGAGCCCCGTGAAACTGGGGCTCCGAAGGGTGGCCCTGCATCCCCGCTACAACCCAGGAATCCTGGACTTTGACGTGGCCCTGCTGGAGTTAGCCCAGCCATTGGTCTTCAACAAGTACATCCAACCGGTTTGTCTGCCCCTGGCCATCCACAAGTTCCCAGTCGGCCGGAAGTGTATGATCTCAGGCTGGGGCAACATGCAGGAGGGAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000059406-Tmprss9:NM_001081688:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.155 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(19.3=75.9)
A:
NA
C2:
PF0008921=Trypsin=FE(39.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGAAGGAAGGACCCAGACA
R:
ATTTCCCTCCTGCATGTTGCC
Band lengths:
355-1012
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: