MmuINT0162757 @ mm9
Intron Retention
Gene
ENSMUSG00000016942 | Tmprss6
Description
transmembrane serine protease 6 [Source:MGI Symbol;Acc:MGI:1919003]
Coordinates
chr15:78272712-78274275:-
Coord C1 exon
chr15:78274107-78274275
Coord A exon
chr15:78272984-78274106
Coord C2 exon
chr15:78272712-78272983
Length
1123 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TTCCCCTGCCTTTCACCCAGCAT
3' ss Score
6.07
Exon sequences
Seq C1 exon
ACTGTGGCCTCCAGGGCCTCTCCAGCCGTATTGTGGGCGGGACCGTGTCCTCCGAGGGTGAGTGGCCATGGCAGGCCAGCCTCCAGATTCGGGGTCGACACATCTGTGGGGGGGCTCTCATCGCTGACCGCTGGGTCATAACGGCCGCCCACTGCTTCCAGGAGGACAG
Seq A exon
GTGAGGGGACACCACAGGGCCTGGGGATGGGCATAGGGAAGGACCGTGGGAGATACAGCATGCACAAACTGTACTCAGACAGAGGAAAGGGTAGAGAGCACCTGGAGGGGCTGCCATGTGGGATCTGGTCTGGTTCTGTTGCAAACATGCAGTGTGTTGCTAGGCTGGCTGTTCAGCCTTTCTGTGTTCCCCTCTTGCTTTAAGATGAGACCACTATCATTTATTCATTCCATTTACCCAATGACTGCACTCCTCCTACATGCCAATGGCTGTACTGGACATCAGGGAGGTAGCGGAGGAGACAACTGTCCGAGCTGATCACAAGCTGTCACCCCTACCATAACTTGAGCCGTAACGAGGAAGGGGACAGGGAAGCTCTCAGGAGTCATCTCACTGGCCCTCACACCTCTTTCCCTGGTGATATGAATCCCTTTCAGTCCTAACTGGATCCGAGCCCCCAAAGCCCTCGGGCCCCTCCCATAGAAGCCTGCACCCTCTGTTGGCTTCCGGGGACCTGTTTGTTGTGCCCAGGCACACCCTGCTCTGCCCACCTACTCTTCTTAGCTCTTTGCTAATTTCTTCACTAAGCCCCTCCCAAGCACTACCTTCTGAGTCTGCAAAATGGGCTACAGACAGGGAAACACTGTCTCAGGCCTGGCACTGGGCTCTTCTTGTGTCTCATTGGCATCTCCTTAGAACACGGACGTAGAGAATGTTCCCATTTCATAGATGAGCCTTGGGGGTGGGTGGGGTGAGATGAGGCTCTTCATTATTGCAGACTGCACTAAGGGGAAGATGGCATATAAGCCACTCAGCTCAGGGGATGGGGGGTGGGTGTACTATGGCCCCATTTTGTTGATGAGAAAACTGAGGACGAGTCCCTTAGTTACTAGAGAAGGCCAGGCTTAGCTAGGGAGAGATGAAGCTGGGGGGTGGAGCCCAGGCATGAGAACACAGATAGGTGTTCCGTCATCGCATCGCTGTATGTCAGCCAGGGGGTTAGGAGAAGAAACGAGAAATGGTACCCCTCACCCCAGCAAAAAAGCTGGCTGTTATCAACTGGGTCCCTGGATGGGAGAGGAAGCAGCTGAGCCATGATGCCCTTCCCCTGCCTTTCACCCAG
Seq C2 exon
CATGGCCTCCCCGAAGCTGTGGACCGTGTTCCTGGGAAAGATGCGGCAGAACTCGCGCTGGCCAGGCGAGGTGTCCTTCAAGGTGAGCCGTCTGTTCCTGCACCCGTACCACGAGGAGGACAGCCATGACTACGACGTGGCCCTGCTGCAGCTCGACCACCCCGTGGTGTACTCGGCCACTGTGCGCCCCGTCTGCCTGCCTGCCCGCTCCCACTTCTTTGAGCCAGGCCAGCACTGCTGGATCACAGGCTGGGGAGCCCAGCGAGAGGGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000016942-Tmprss6:NM_027902:15
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=PU(20.0=80.7)
A:
NA
C2:
PF0008921=Trypsin=FE(39.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGATTCGGGGTCGACACATCT
R:
CTCCCCAGCCTGTGATCCAG
Band lengths:
342-1465
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: