MmuINT0162763 @ mm10
Intron Retention
Gene
ENSMUSG00000016942 | Tmprss6
Description
transmembrane serine protease 6 [Source:MGI Symbol;Acc:MGI:1919003]
Coordinates
chr15:78459430-78459923:-
Coord C1 exon
chr15:78459745-78459923
Coord A exon
chr15:78459472-78459744
Coord C2 exon
chr15:78459430-78459471
Length
273 bp
Sequences
Splice sites
5' ss Seq
TGGGTCAGT
5' ss Score
4.68
3' ss Seq
TGTTCATTTCCTTTTGACAGAAG
3' ss Score
7.3
Exon sequences
Seq C1 exon
GGAGGGACCCCTCACCTGCTTCTTCTGGTTTATCCTTGACATCCCTGAGTACCAGCGACTGACCCTGAGCCCTGAAGTAGTGCGCGAGCTCCTGGTGGATGAGCTACTGTCCAACAGCTCAACCCTGGCTTCCTATAAGACCGAATATGAGGTGGACCCGGAAGGCCTGGTGATCCTGG
Seq A exon
GTCAGTACTGTGAGGGGAATCCTGGTGGGGTCAGAACAGCGGGCCAGGGGAAGCTGCCTCCCTCCGGGGGTTGGGATGCTCAGGTGATCCTGGAGCCAAGATAGAAGTCGAGGGCGGGGACAGGGGCAGGAGCAGGGGCAGGGTGGGTGCAGACAGCATGGAGGGCTTACCTCTGCTGAGCCTGGCTCGGCTTCTCTCCCCTGTTTTTATTTTCGTTGTTCTATTAATTTGGCTTTGCCCTTGTTTATTTGTTTGTTCATTTCCTTTTGACAG
Seq C2 exon
AAGCCAGTGTGAACGACATAGTCGTACTGAATTCCACGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000016942:ENSMUST00000017086:5
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:
PF0139015=SEA=PD(43.1=77.0)
A:
NA
C2:
NO
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:
GACCCCTCACCTGCTTCTTCT
R:
CCAGCGTGGAATTCAGTACGA
Band lengths:
216-489
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