MmuINT0162756 @ mm10
Intron Retention
Gene
ENSMUSG00000016942 | Tmprss6
Description
transmembrane serine protease 6 [Source:MGI Symbol;Acc:MGI:1919003]
Coordinates
chr15:78443677-78444212:-
Coord C1 exon
chr15:78444096-78444212
Coord A exon
chr15:78443846-78444095
Coord C2 exon
chr15:78443677-78443845
Length
250 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGC
5' ss Score
6.64
3' ss Seq
TCCCCCCCCACCATTATCAGACT
3' ss Score
6.04
Exon sequences
Seq C1 exon
GAGTGCCCTGTGGGACATTCACTTTCCAGTGTGAGGACCGGAGCTGTGTGAAGAAGCCCAACCCAGAGTGTGACGGCCAGTCAGATTGCAGAGACGGCTCAGATGAGCAACACTGTG
Seq A exon
GTGAGCCTGTTAGCCAGGGCTGTGCATGAAGGCCAGGCCTGGGAGTGGGGCATGGACTCTCATGGGAAGCAGGAGGGGAGTGTCACCATGTGTCTGTTCCGTGCCTAGCTGTCTCTGTCACCTGTTCCTGGGCCTAGCTCTCCTTTCCCCCCACACCTCTTCATTGCTTTACTTTGTTGTCTGTCTCCATTTCTCACGAGCCTTTCTTCCTCCCCTCTCCTTCTTCTCTGTCCCCCCCCACCATTATCAG
Seq C2 exon
ACTGTGGCCTCCAGGGCCTCTCCAGCCGTATTGTGGGCGGGACCGTGTCCTCCGAGGGTGAGTGGCCATGGCAGGCCAGCCTCCAGATTCGGGGTCGACACATCTGTGGGGGGGCTCTCATCGCTGACCGCTGGGTCATAACGGCCGCCCACTGCTTCCAGGAGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000016942:ENSMUST00000017086:14
Average complexity
IR
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:
PF0005713=Ldl_recept_a=WD(100=95.0)
A:
NA
C2:
PF0008921=Trypsin=PU(20.0=80.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGTGGGACATTCACTTTCCA
R:
CTGTCCTCCTGGAAGCAGTGG
Band lengths:
280-530
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