MmuINT0162790 @ mm10
Intron Retention
Gene
ENSMUSG00000059406 | Tmprss9
Description
transmembrane protease, serine 9 [Source:MGI Symbol;Acc:MGI:3612246]
Coordinates
chr10:80894802-80897369:+
Coord C1 exon
chr10:80894802-80895207
Coord A exon
chr10:80895208-80897197
Coord C2 exon
chr10:80897198-80897369
Length
1990 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
CCATATTTGCTCTTCTACAGATT
3' ss Score
9.13
Exon sequences
Seq C1 exon
GGTGATTCTGGTGGCCCCTTGGCATGTGAAGAGACACCTGGTGTCTTTTACCTGGCTGGCATCGTGAGCTGGGGCATTGGCTGTGCCCAGGCTAAGAAGCCTGGCGTATATGCACGAATCACACGCCTCAAGGACTGGATCCTGAAAGCGATGTCCTCAGACCCCAGCTCCATGGCTCGCCCCCACACCTCCAGCACACGGCTCATCCCTAGTGAGCCCCCCAAAACCACAGCTGCTGGCCTCATTATCCCAGAGGCCACCACCAGCAGACTTGCTACCCCCAGGGCCACCATCAGAGTGACCACTAGACCACTCAACACAACACTGTCTGCCAGGAGTACCACCACCAGGGGACAGACAGCAGCCCCAAGTGCACCGGGCACCACCATACACTCTCACCTGCCAG
Seq A exon
GTATGGTAACTCGGGCTGGGACTCCAGCCGGTCCCTCTCATGGCACGATGGTGCTGAAGACACACCATCCAGAGCTGGAGTCTGATGTCTGGGTCTTGTGGCAGCCTGCCCAGCCTGCAGAAGGCACTCTGCCCATGGTGCTGTCTGTGCCTGTGTGCTGACATCTTCTGTCCATTTATTTGTGTGTGCACACGTGTGCATGCAGAGGCCAGAGGAGGGCCTCCATATCCCACTCCACCAAGAATGTGAACACTGTCCTCTGTCACACTCCACGGTGCTCCTCCGAGGCAAGGCTCCTCATTGTACCTGCAGCCTCTGCAGCAGCTGGCAAGTCCCAGCCAGCCTCCTGCCTTTGCCGCCATCCGTGCTGGGGTCAAAGGCTTGCACACAACCATGCCCACTGACCCATCTCTCCAGCTTCTGTTTCTTTTAGTATTGTCAAGTTCCTCCTGGACTAGGACCTACTCAGTTGCTGAGGCTGACCTTGAACTCCTGTTCCTCTTGATGGCTGGGCCTAAAGGCAAACACATGTCACCTCAGCTACTTGACAGGAGCATCACAAGTTCAAGGCCAGCCTGGGCTGTGAGGGGCTTTCAGGGCTATTGTGATAAACTTAGTGAGAGGGCCTCTAACCAGCAAACACTAAGGACTGGAGCTCTGCCTAGAATCCTGCCCCACAGGCGGGGCTGGGGCGTGGTCAGAGTAGAACCTCTGCTCAGAATCCCCCATTGAGGGGCTGGGGGCGTGGTCTGGCCCAGTTTTGGAGGCTCTGCGGTCCATGTCCAGGAGTGTTCAAATTAAAAAAAAAAAAAAGAGAGAAGAGGGGAGCAATACCCAGAGGGAGGGAGAGCGAATGAGACGGCTGGAGAGAGGAGTAGTGCCTCAGCTGAGCCTCTGGGTGTGGTTCCACACACCATAAGTCTTGGAGGCTGAGGCAGGAGAATTGCTTGGACTTTCAGGCCTTTCTGGCTGCATGTGTAGGGAGATCATGTCTCAAAACCCCAACATTTTACAACAGCTGGGGAAAGTAGACTGTCTACAGAGGGAAGGACGTGACCGGTGTATGCTTTGTGTGGTCAGGTCTTACCCCCCCCCCCCCCCAGCATCTGTGAGTGCGGCATGAACAGAGAGGGACAGTGTCCCCTTGCTGGGGTCCCTCAGGTAGACAGGCAGGAGAGCTGGTGACGAGGTTGTGTTTGTTTCTATCTCCCACTGTACTACAAGTGCCCCCACATCCAGGCACCCCAGCTGTGACTCCCTGCTGTGGGGACGCTTGCCCAGGGTGAGTTCCCAAAGGGTCCTAGGTTAGACCTTTCTCACCCCTTTCTCTCATTACTGTTGGGGTGCTGCTCCTAACGTCACTGGGCCAGCGAGGATGTTCCTCCACTTGAAGCAATATGGAAGCGGTATTAAGTGGCTTTGAAATAGCAGATGGAGTCAGGACTACATGATGAGAGGCAGTGGGCCCTTGGGGTCACAGCAGGGCCTCTACCGGAAGCCCCGTGCCTCGGGAGACCCCACACCTGAGCGTCCTGGCAGATGAGTATTGGCTTCCCCAGCCTGGCCTTCAGCTCAGTCTGACCCTGACCCAGGTGATTGCGGTGGCCTGGGAGCTCTTGGCCAGAAACCCCAGGAGATCCTAAGGTGGGACTCTGGCTCCGGGAGCCAGTGCCCGAGGCTTACTTAGGAAGGAGGCAGCACAGGTTGAGCTCCGAAATCACTCTCCTGAATTCCCACTCCTCCGATGGGGCCTTAGATGTCTTTCTTTCCCTGGGCTCCTTTTGTATTGGTTGAGGGTGGGCCAGGAAGAGACTTGGACTTAATGTCCCGGTGGTAGCCAGTGGCTGGGAAAGAGGCACCAGTTGGGTGTTACATGAAGCCACCTTCTGACCCTCCCACAGGGCACAGGGTGCTGGGTTGGGGTCCCAGCCTCGGGGTGGGTAGGAGGAAGACCCTCTGCACCAGGCTCACCATATTTGCTCTTCTACAG
Seq C2 exon
ATTGTGGCCTGGCACCCCCCGGGGCCCTGACCCGGATAGTGGGCGGCAGCGCAGCCTCGCTTGGGGAGTGGCCCTGGCAAGTGAGCCTGTGGCTGCGGCGCAGGGAGCACCGATGTGGGGCGGTACTGGTGGCCGAGAGGTGGCTTCTGTCTGCAGCACACTGTTTCGACAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000059406:ENSMUST00000219817:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.441 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PD(20.2=33.8)
A:
NA
C2:
PF0008921=Trypsin=PU(19.9=77.6)
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:
TGCTGGCCTCATTATCCCAGA
R:
ATGTCGAAACAGTGTGCTGCA
Band lengths:
345-2335
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