MmuINT0162795 @ mm10
Intron Retention
Gene
ENSMUSG00000059406 | Tmprss9
Description
transmembrane protease, serine 9 [Source:MGI Symbol;Acc:MGI:3612246]
Coordinates
chr10:80883719-80884118:+
Coord C1 exon
chr10:80883719-80883786
Coord A exon
chr10:80883787-80883942
Coord C2 exon
chr10:80883943-80884118
Length
156 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CCCTCCCCTCTTGCATGTAGGGA
3' ss Score
8
Exon sequences
Seq C1 exon
TTTGTGAGTAGTTTCCAGAAAACAGAGTTAGAGTCGAGCTGCGCAGGCTGCACCGTGCTTAGTTACAG
Seq A exon
GTGAGCTGGGACCTCTGTGAGGGTGTAGCAGCTATGGTAGACATTGTGGAGATGCCAGAAGCATATAGATAATTCTAGAACCTTCCAGAAGTATCTGGAAGATTCCCAGCTGTGAGCTTGCCCTCCACCCTCAAGACCCTCCCCTCTTGCATGTAG
Seq C2 exon
GGATGGCAATTCCACTGTGATTGTACATTTCCGGCTACACTTTCTGCTCCGAGCCCTCCAGCCCCTGAGCCTGAAGCAGGAAGCAGACATCTTGCAGAAAGGAATCCAGGCAAGGCTGCAGGAACAAGGTCTTTCCCTGGCTGCCTATGGCACCATCGTGTCAGTCGAGCTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000059406:ENSMUST00000219817:4
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:
PF0139015=SEA=FE(23.7=100)
A:
NA
C2:
PF0139015=SEA=PD(40.9=63.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCAGAAAACAGAGTTAGAGTCGA
R:
AGCTCGACTGACACGATGGT
Band lengths:
226-382
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