MmuINT0162788 @ mm9
Intron Retention
Gene
ENSMUSG00000059406 | Tmprss9
Description
transmembrane protease, serine 9 [Source:MGI Symbol;Acc:MGI:3612246]
Coordinates
chr10:80355731-80357172:+
Coord C1 exon
chr10:80355731-80356002
Coord A exon
chr10:80356003-80357035
Coord C2 exon
chr10:80357036-80357172
Length
1033 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGC
5' ss Score
8.27
3' ss Seq
GATGACCTCTTTCCTGGCAGCCA
3' ss Score
7.94
Exon sequences
Seq C1 exon
CACCAAAGTGGAGCAGGTGCAGGCGCACCTGGGCACCGTGTCCCTGCTGGGTGTCGGCGGGAGCCCCGTGAAACTGGGGCTCCGAAGGGTGGCCCTGCATCCCCGCTACAACCCAGGAATCCTGGACTTTGACGTGGCCCTGCTGGAGTTAGCCCAGCCATTGGTCTTCAACAAGTACATCCAACCGGTTTGTCTGCCCCTGGCCATCCACAAGTTCCCAGTCGGCCGGAAGTGTATGATCTCAGGCTGGGGCAACATGCAGGAGGGAAATG
Seq A exon
GTGAGCAGGTCCCAGGGAGGGAATGACTATTTTATCTCCAGGGCCTGGCCTGGGAGGGATGCGGCTTGGCTTCCCTCAGCTGGGTCCTAAACTACTCATTCCTCTGTGCCAACCTGACAGCCTAATCCTAAGTGCCACTCCACGTCTCCTAGGGTCTACAGATGGGCCCTTATGTGTGTGTATAAATAAAGTTTTATCAGCACAAGGGCCATACATTCATACGTCCACGGCTGCAAAAAACGTCTGTGCTGACCCAGTAGCCTTTAGTTTCACAGACCTGAGCCACCAGCCTCTTGCTATGCCAGAGATCACATGGAGCCCACTGACTGGGTATAAACCAGGCTTTATTGCCATACAGGCCCTGCACATCCATTCACTAACAGGATATCTTATCCCTGGCTTTTCTTTTACATGGCTGAATAGGTTATCTAGACTATATAGCTGAAAATCTTTATGCCCTAGTGTAGTGGTTCTCAACCTTCCTAATGCTGTGACAGCCCTTTAATAAAGTTCATGTTGTGGGGACCCCCAACCACAGAGTTATTTTGTTGCTACTTCATAACTATAATTTTGCTGCCGATAGGAATTGTAATGTAGTATCTGATATTCAGGATCTCTGACATGTGACCCCAAAGGGGTTAGCCAGTAACATTCTAGTCATTTATGGACAACTTTGTCAAAATGGGAATGGTGCCTACACCACTAAAGAGGCAGGAGCATCCTAGATTTAAGGCCAGCCTGGGCTACATAGTGAAACCCTTTAAAAAATGCAAGAATTGGGGTGTGCTGAGCACTTGGTTCGTATGTGCAAAGGTCCTGGGTTCCACTCCAGTCCCACAAGGAGAAATGAAATTCCTGTGAAAGCTAGGTGTGGGGGCACACACCTTTTATCAGCATCAGAGAGGCAGAGGCAGGAGGATCTCGGTGAGTTCCAGGACAGCCAGAGCTACACAGTGAGACCATGTCTTAAACAAGTCAGAAATTCATGTGGGCTCTGCCTGCTGGCCCTGCATGATGACCTCTTTCCTGGCAG
Seq C2 exon
CCACCAAGCCTGACATCTTGCAGAAGGCGTCCGTGGGCATCATAGAGCAGAAGATGTGTGGAGCCCTGTACAACTTCTCCCTCACTGACCGCATGCTCTGTGCTGGCTTCCTGGAGGGCAGAGTTGACTCCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000059406-Tmprss9:NM_001081688:12
Average complexity
IR-S
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:
PF0008921=Trypsin=FE(39.9=100)
A:
NA
C2:
PF0008921=Trypsin=FE(19.7=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:
CCAAAGTGGAGCAGGTGCAG
R:
TGTACAGGGCTCCACACATCT
Band lengths:
342-1375
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: