MmuINT0162801 @ mm10
Intron Retention
Gene
ENSMUSG00000059406 | Tmprss9
Description
transmembrane protease, serine 9 [Source:MGI Symbol;Acc:MGI:3612246]
Coordinates
chr10:80889330-80890496:+
Coord C1 exon
chr10:80889330-80889466
Coord A exon
chr10:80889467-80890177
Coord C2 exon
chr10:80890178-80890496
Length
711 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGC
5' ss Score
8.07
3' ss Seq
AGAGTGCCTTTGTTTTCCAGGGG
3' ss Score
7.46
Exon sequences
Seq C1 exon
TGGTGAAGCCAGAGGTCCTTCAGAAAGCCACGGTGGAATTGCTGGACCAGAGCCTGTGTTCCAGCCTGTACGGCCACTCGCTCACCGACAGGATGGTGTGTGCCGGCTACCTGGACGGGAAGGTAGACTCCTGCCAG
Seq A exon
GTGGGCTGCCAGGGTGAAACAGTTACCCTCTGTCCCCTCCCTCTGGAGAACAAGCAAATGCATGCTAAGTGGAACCAACCAGCACTCCGGAGGTGGAAACAGGAGAGTCAGGAGTTCAAGGGTGTGAGGCCCCGTCTCAAAAGGAAAACAAGCCAAAAGTATCGGCACTGAGCTCGTTGTAGTTGACTGCATTTTATAAACGAAGTCACCGCATAGTTTTATTTTGTTTTATTGGTTTTTCCAGACAGAGTTCTCTGTGTAGCCCTGGCTGCCCTAGACTGTATCTCTCAGTAAACCGGATTGGCCTTGAACTCACAGAGATCTTCTTGCCTCTGCCTCCCGAGTGCTGGGGCAGGAGGGGTGGCTCAGGGGTTAAGAGTTTTGGGGGATCCGATGCCTTCTGGTCTCTGAGGGCACCCGGCGCAAAAGTGGTGCACTGACAATAAACACAGACTAAATATTCACCACATAAATATCTCAATAAATAATTACACAAAGGTATGCGGCTCCTGGCACGAGTGCTAATGACATCACATTCGCTATCCTCGCTCTTGCTGTGCTCCTACCCGGGAGCCATTCTATCGACCTCTGTCTGCCTCTGTCCACAGAATCCATGAACGCTCGTGGACAGAGGATTCAGCCCCGGCTCTGGGTTGTCTCTGCCTCGGAGAGGCCTCACCCCCAAGCTGAGAGAGTGCCTTTGTTTTCCAG
Seq C2 exon
GGGGACTCCGGGGGACCCCTGGTCTGCGAGGAGCCTTCAGGAAGGTTCTTCCTGGCTGGTATCGTGAGCTGGGGAATCGGCTGCGCAGAAGCGCGGCGCCCAGGGGTCTACACCCGAGTCACCAGGCTGCGGGATTGGATCTTGGAGGTGACCAGCGCTGCTGACATGCCTGTGGTCCCCACCGCGACTCCAGCGCCCGCCACCCCCAGCACTCCCTGGCCTACCAGCCCTGAGAGCTGGGCGCCCAACACCTTTGCCAAACCCACCGCTGCCCCCAGCCCTGTGCCACTGCACCCCAGCACTACGGCCAAGCCACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000059406:ENSMUST00000219817:10
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=0.477
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(19.7=100)
A:
NA
C2:
PF0008921=Trypsin=PD(20.1=43.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCTGTGTTCCAGCCTGTAC
R:
GTGGGTTTGGCAAAGGTGTTG
Band lengths:
352-1063
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