MmuINT0162667 @ mm10
Intron Retention
Gene
ENSMUSG00000037129 | Tmprss13
Description
transmembrane protease, serine 13 [Source:MGI Symbol;Acc:MGI:2682935]
Coordinates
chr9:45328417-45329969:+
Coord C1 exon
chr9:45328417-45328789
Coord A exon
chr9:45328790-45329864
Coord C2 exon
chr9:45329865-45329969
Length
1075 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
CCCTACCTCCCTATTCTTAGGTC
3' ss Score
8.95
Exon sequences
Seq C1 exon
AATTCTTCTCCAGCAAGGACACCTCCCCAGGCTTCCCCAGCAAGGACATCTCCAGCAAGGGCACCTCCTCAGGCCTCTCCAGCAAGGACACCTCCTCAGGCCTCTCCAACAAGGACACCTCCTCAGGCCTCTCCAGCAAGGGCACCTCCTCCTCAGGCTTCCCCAGCCCGGGCATCTCCAGCCCGGGCATCTCTAGCCAGGGCACCACCTTCCAGGTCATCATCGGGCAGATCATCATCTGCCAGGTCAGCCTCCACGACATCCTCCCCAACGAGAGTGTACCTTGTTAGAGCAACACCAGTGGGGGCTGTCCCCATCCGGGCATCTCCTGCCAGGTCAGCACCAGCCACCAGGGCCACCAGGGAGAGCCCAG
Seq A exon
GTAAGGGGGCCGCTGCAGGGAGGGCAGAGATCCAGGGCAGATTTGGGCAGAGGGAAGCTCTCGGTGAGCACTCTGCTCCTTGTACCCCTGGGATAATGACACGGGGGGTCAGCCAGAGTGGAACATGGGGAACCTGGAGAAGTGAGGGTAGAAAGAGACCATGATATGACAACCTAAGACAGTGGAAAATTAGGCAAAAAGAGGAGGGGCCAAAAGCCAGGAGCAAGGAGGCAGAGCGCTCACTGCTGAACTCCAGAGTTCTCCAGGCAGAGTGCTGGAGGTCACTCTGCCCAGGGTAGAGATCTGACTTCAAGAGCAAGGGTTCTTGGGTACATGAGGGTCTGTTTGCTTTGGCTGGCCTGTATGTCTGCTGGAGAAGCCAGGGTAGTACAAGGTATGATCAGTAGGCCTGCTCATACGTAAAGGAAGAATGGGAGGGACTCTGGCTCCTCCAAGCTTCCAAACTTGTGGGGGATGAGGCTCAGCAGTTCATCTGCCAAAAAGTCAAGGAGGCCATTGGGCCTCCAGGCATGGTTCTGCCCCTCAGGAAACTGTTTCCATGTACCCCAGACCTCACCCTGCCCCATTGCTTCACCCCCAAATATTCAGGCCTTGTGGCTTTTTGACTGTGAAGGAACACCCAAGGTTTGAGGACCATCCTAGCCTTTCCCTCCCTACCCAGGGTAGGAGAGGCACTTTGGTGGCATGGATTTTAGAATGAGACACTGCATTTGAACCTCTGTCCTGCCAATCACTAGTTTAGTGACTCTGGGTAACTTCTTTCATGTCGATGAACCTTGGTTTCCCCATCTACGAATGTATCTAATAAGACTCAGCTCATACAATGCAGTGAGGATGAACTAGCAGAACACATATGCGGTACCTAGCCTAGAGGAACCTGGGGGAGGGAGTCCATTGGAGGATTATACTGGGGAGGGGTGGAGATGTTTTGTGAGGTGCAGAGCCCTAGGCAGGATGCTGGGGTGAGGGTGGTGTCAGTTTCGCTTCCTTCTGGGCCCTCCACTGTGCCACGCTCCTCCACAACAGTTTTCCTTCCCTACCTCCCTATTCTTAG
Seq C2 exon
GTCTCAGTTTCCCCAAGTTCTCCTGGCAGGAGACCCAGAGGCAGCTGCCACTCATCGGGTGTGTCATCCTTCTCATCAGCCTGGTGATCTCACTCATCCTTCTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037129:ENSMUST00000034597:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.904 A=NA C2=0.056
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
CTCAGGCCTCTCCAACAAGGA
R:
AGGATGACACACCCGATGAGT
Band lengths:
349-1424
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