MmuINT0162759 @ mm9
Intron Retention
Gene
ENSMUSG00000016942 | Tmprss6
Description
transmembrane serine protease 6 [Source:MGI Symbol;Acc:MGI:1919003]
Coordinates
chr15:78270097-78271174:-
Coord C1 exon
chr15:78271038-78271174
Coord A exon
chr15:78270803-78271037
Coord C2 exon
chr15:78270097-78270802
Length
235 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACT
5' ss Score
8.63
3' ss Seq
TCGCATCTCTCCTGTTTTAGGGT
3' ss Score
11.57
Exon sequences
Seq C1 exon
GTCCGGTGAGCAACACCCTGCAGAAGGTGGACGTACAGCTGGTCCCTCAGGACCTCTGCAGTGAGGCCTACCGCTACCAGGTGTCCCCACGCATGCTCTGTGCTGGCTACCGCAAGGGCAAGAAAGATGCCTGCCAG
Seq A exon
GTAACTAGCTATGGGGTGTGTCCTGAAGTGGGGGGGATGACGACTGCTCCCACTTTACAGATGGGGAGCCTGAGGTCTTCAGAGGCTGAGGGGCCTGCTCATGGCTGCAATGGCACATGGCAGACCCCTTGGGGCGGAAGGTCTTTCGCTCTGCTCCTTCCTATCCTAAGACCTTGGGGCTGGAGTCACACGGGTAGACCCTCACCCTGAGGCAGTCGCATCTCTCCTGTTTTAG
Seq C2 exon
GGTGACTCTGGAGGCCCACTGGTTTGCAGGGAGCCCAGTGGCCGCTGGTTCCTGGCAGGGTTGGTTAGCTGGGGCCTGGGCTGTGGCCGACCCAATTTCTTTGGCGTCTACACCCGTGTCACACGTGTGATCAACTGGATCCAGCAGGTGCTGACCTGAGGGCTGTTCTACAGAGCTGGACCTGCCTCCAGGCCAAGTTCAGGGTGTCCACCCAGCCAGGACACAAGTATTCTGGGGCAAGTGACCCTGCTAAGGCCTGTTTCCCTCAGGCCTACCCCAGTGACAGTACAGAGAAGGATGTCAGCTGGTGGTTAGGATGCCTCCTGAGGTCCAGGGGCCAGCCTCGGCTAGGTTTCACTTCTAACCCTTTCTTATTCTAGTCCTTTCCCCTCCCTGCTCCTACCACTGTTTTGGAGTGGGGTCTGGCGGCCATGACCTTGGCCTCCGGGTCTCTGTAGGAAAGAAAGAATCCTTCCCCTTGCAAAAGCCTCTTGGGGGAACTGCACAGAGAAAGAAGGTGCCTCTATCAAGGCTCTATCAGAGCCCTTGAGTCTGCCAAGTGGGCTGTACTCTAAGCCAAATCACCGGGCAGCCTCAGCTGCAGATGCCTGCTGAAGCTCTGCCTGCTACAGGGGCCTCCCTGCCATTCACTGGAGGCCCACTGTCTGTTCTGGGAATAAAGCACTTGACCAAGCCCTGACACTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000016942-Tmprss6:NM_027902:17
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(19.6=100)
A:
NA
C2:
PF0008921=Trypsin=PD(20.0=86.8)
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:
CTGCAGAAGGTGGACGTACAG
R:
AGCTCTGTAGAACAGCCCTCA
Band lengths:
297-532
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: