MmuINT0162786 @ mm10
Intron Retention
Gene
ENSMUSG00000059406 | Tmprss9
Description
transmembrane protease, serine 9 [Source:MGI Symbol;Acc:MGI:3612246]
Coordinates
chr10:80890178-80892328:+
Coord C1 exon
chr10:80890178-80890496
Coord A exon
chr10:80890497-80892156
Coord C2 exon
chr10:80892157-80892328
Length
1660 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTG
5' ss Score
7.76
3' ss Seq
TCTCTCCTCTCCCCTGGCAGAGT
3' ss Score
11.11
Exon sequences
Seq C1 exon
GGGGACTCCGGGGGACCCCTGGTCTGCGAGGAGCCTTCAGGAAGGTTCTTCCTGGCTGGTATCGTGAGCTGGGGAATCGGCTGCGCAGAAGCGCGGCGCCCAGGGGTCTACACCCGAGTCACCAGGCTGCGGGATTGGATCTTGGAGGTGACCAGCGCTGCTGACATGCCTGTGGTCCCCACCGCGACTCCAGCGCCCGCCACCCCCAGCACTCCCTGGCCTACCAGCCCTGAGAGCTGGGCGCCCAACACCTTTGCCAAACCCACCGCTGCCCCCAGCCCTGTGCCACTGCACCCCAGCACTACGGCCAAGCCACAAG
Seq A exon
GTATTGCGGATTTTGGGCAGGTGTCCCCTCCCGGACGGGTCAGATTAGGCCAGCCTCTCCTCAGCACTAATGGCAAGGAGACTAATGATCGATTACTGAGGTCTGTCACGAAGCACTCGGTGGAAAAGAGATTGCTAATAGATTCTTCATCCACATCTGTCTCATTGGCTCCTGAGGGAGTCAGCAAGCACTCTATTGACTATTAATGCCTGCCATGCAACACTGGCTGAAGAGGGGCATCTAAATGAAATCCTTATATGCTCAGTGTGGGGTTGGTAATCAATTGTCAATATCTGTCTGGAAAGACCTAGAGGAATTGGTGATTGACTATATGTTTGGGAGAGGGGGATGTTGGGCTCGTTGTAGCCCTAGCGGTGGTCCTTTAACTCTTTGTGTAGACCAGGCTGACCTCGAACTCACAGACATCTGCCTGTTTTTGCCTGGGATTAAAGGCGTGTTCCACCAGGCCTGGCTGTGATTAACTGTTGCTGTCTGCCTTAACACTGTGGGAGACTAACAGCTGATTACTGATTTCGTCTGGTGGGGGGAGATGGAGGGAGAGGGCAAATGCCCAAGGACAACTTGCAGGAATTGGTTTTCTCCTTCCACCACTGGCTTTCAGGGAATTAAACTCAGCTTATCGGGTTTGATGGTTAGTGCCTCTATCTGTAAGTCTGTAAGTGGAGGATTGGTGATTGATTGCCAGTGTCTGCCTGCCTTGACTCCTCATTGAGAAGTTGGTGATTGATTATTGGTGTCTGCCATGAAAGAGCATGATGGGAGATCAGCAGGTTTATTATTGGCATCTGTCTTGACATTTGGTGGGAAATTGGTAACTGCTTATTGATATCTGCCATGAAGCAATCAACAGGGGATTAGCAATTTATTACTGATGTTTGCCATGAGCACACACATCTGTTTCAGGTTGGACATTCTCCAGGTCTTTGGGAGGACATTTTTATTAAGTTTTTAAATATTTATTTTATATTTTATGTGCATTAGTGTCTGCCTTCATGTGTGTCTGTTGGATCTTGGAATTACAGATGGTTGTGAGCTGCCATGTGGGTGCTGGGAATTGAACCCGGGTTCTCTGGAAGAGCAGGCAGTGCTCTTAATTGTTGAGCCATATCTCCAGCCCCAATTTTTATTTTATTTTTTAAAACAATTTTTTTTTCACTATGAGGCCTGGATGGAACACAGCTCATTATGTAGACCAAGTTAGCTTTGAACTCACAGAGATCCTCCTGCCCCAGCCTCCCAGGGGCTGGGATTAAAGGCCACCACTGCTGGCTTCATTGAAAGTATAATGTAGGTGCGTGGGAAATGAGACAGCACAAGACAGCACAGTTAGAGTGACCGCAGGGTCAGCAGGAAGTTCCATGTGCCTGTGGGAGCTGGGTGACCAAGTCTCTGCTGTGACCAGCATAGTCCTGCCGGCACCATCCCTGCTCCTGCACACCTCTGTGTTTTATCAGCCTTGAATCTCTTGAGGTTTTGTGTAAGTTGTGATGCCTGGTGTACCTGAGGCAAGGGCCCTGCCACACCCTGCCCAGGCTGTGACATCCCAATTGCTCAGTATGTAGGTTACCCTAGGCCCAGAATGGGTGAACCCAGAGTAGATGATGACCCCCTCCACCCCCTCTCTCCTCTCCCCTGGCAG
Seq C2 exon
AGTGTGGGGCCAGACCCGCCATGGACAAGCCCACTCGGATTGTGGGCGGGATCAGCGCCGTGTCTGGGGAGGTGCCCTGGCAGGCCAGCCTGAAGGAAGGACCCAGACATTTCTGCGGAGCCACCGTGGTGGGTGACCGCTGGCTGCTGTCTGCCGCCCACTGTTTCAACCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000059406:ENSMUST00000219817:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.477 A=NA C2=0.155
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PD(20.1=43.0)
A:
NA
C2:
PF0008921=Trypsin=PU(19.3=75.9)
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:
GGAATCGGCTGCGCAGAAG
R:
TGTCTGGGTCCTTCCTTCAGG
Band lengths:
356-2016
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