MmuINT0162710 @ mm9
Intron Retention
Gene
ENSMUSG00000000385 | Tmprss2
Description
transmembrane protease, serine 2 [Source:MGI Symbol;Acc:MGI:1354381]
Coordinates
chr16:97812427-97813117:-
Coord C1 exon
chr16:97813031-97813117
Coord A exon
chr16:97812547-97813030
Coord C2 exon
chr16:97812427-97812546
Length
484 bp
Sequences
Splice sites
5' ss Seq
TCTGTAAGT
5' ss Score
7.96
3' ss Seq
TTCTCCCAATACAATGCCAGGGG
3' ss Score
2.74
Exon sequences
Seq C1 exon
AGTCTAAGAAATCGCTGTGTTTAGCCCTCGCCCTGGGCACTGTCCTCACGGGAGCTGCTGTGGCTGCTGTCTTGCTTTGGAGGTTCT
Seq A exon
GTAAGTTTGGGGCTGGACTGTGTGCATGGCCGTGACTGTGACCTTCTCCCCAGGCTGGAGGAGCCACCTGATGCCTCCCAGATTGGTTTCCATTGAGGGCAAGGCTGCCTTTTCCTCCCTTTTCTCCATGCACCTATTGCTGTATAAACAGTGTATGTATTCTTGCTTCCACAAATCTGTAGCTTGTGGGAGTCTTAAACTAGTTCTCTCATTCAAGTAGCAACAAGGTTGTACCCTGCTGTTCATTTCCTCCAACAAGGTCACACCTATTCCAACAAGGCCACACCTCCTAATAGTGCCATTTTCCAAGAGCCAAACTTATTCAAAGCGCTACATGTAGCAATGGCATGTCCTTTCCTTGTGAGGAGGTGGTTTTTCCTGTTCACTGGACTTGAGGGTGAATGACAAGACTCCTAAGGGCTCTGCAGTTCCTTGGATGCTCAGCCTGATGAGTTTTCCTCCCTTTCTCCCAATACAATGCCAG
Seq C2 exon
GGGACAGCAACTGTTCTACGTCTGAGATGGAGTGTGGGTCTTCAGGCACATGCATCAGCTCTTCTCTCTGGTGTGACGGGGTAGCACATTGTCCCAACGGAGAAGATGAGAACCGTTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000385-Tmprss2:NM_015775:4
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:
NO
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=92.7)
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:
AGTCTAAGAAATCGCTGTGTTTAGC
R:
ACAACGGTTCTCATCTTCTCCG
Band lengths:
206-690
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: