MmuINT0162715 @ mm9
Intron Retention
Gene
ENSMUSG00000000385 | Tmprss2
Description
transmembrane protease, serine 2 [Source:MGI Symbol;Acc:MGI:1354381]
Coordinates
chr16:97790501-97792150:-
Coord C1 exon
chr16:97791982-97792150
Coord A exon
chr16:97790677-97791981
Coord C2 exon
chr16:97790501-97790676
Length
1305 bp
Sequences
Splice sites
5' ss Seq
AGAGTATGC
5' ss Score
3.16
3' ss Seq
TCTGCCCTTCTGTCTCTCAGACC
3' ss Score
10.39
Exon sequences
Seq C1 exon
AATGCGGGGTTCGCTCAGTGAAACGCCAGAGCAGGATTGTGGGTGGATTGAATGCCTCACCAGGAGACTGGCCCTGGCAGGTCAGCCTGCACGTCCAAGGCGTCCACGTCTGCGGAGGCTCCATCATCACCCCCGAGTGGATTGTGACGGCCGCCCACTGTGTGGAAGA
Seq A exon
GTATGCCTCCATTCTGTGAAGTCTAGGGTAGTAGAGTGGAGTCATGTGGCCCAGACTTTTGGGTTTGGAGTGTGGCTCTGCCACCATGTGATCCACACCAAGCTGTGTGGCAGCTCCCATGTCCTGCTGGGGTGACAGTGCTGCTGTGTGGGGGACATGTGTGCTACAGGTGCACAGCTTCATCCACTCATTACACAAATGTCCCCATGGTATCTCCTGCCTGCTGCTGCATCCCAGCCTGGGATAGGGATGATTATCAGCATCACTGTGACTAGATATGTTTCATCTATGAGTTCTGAGAGCTCCTGCTCTATCAGTCTCATTTTTCCTGGATGCTAATCTCAGGGCGAAGCCTACTTTGACAACCTCACACTATCCTAGTAGGTTCTCTGGGAGCCTGTGTAGATACCCTCTGTCTTGGCATTGCCCTCACAGGTGGGCAGGAAAGGTGACTACGCCATATTGCATAGTGTCAGCTCTTGCCAAAGACACTGTTCCATCTTCCATCCTCCCTCCATCTTTTCTTTCCACCTCTTCCCTCTCCTCTCTTCATTTCCAAGGGTTTTATTATCTAGTTCAGGCTGGCCTCAAAAGAATAATTATGCCCCAGGCTCCTGAGTGTACAGGTACAACCCACTTAGAACAAAATCATATCTTTATTAGATTTTGGGCACTTTCTGCCTTAAGTGAGCCTCAGTCTGACTCAACTTCTGGCCCAGCCATTCTCTGGCTATGTGCCCTTGGACAGATGACTCAATGTCTCTTAGCCTGTTACTACCACACAGGAGTGCCCTTCTCTTCTTCCTCCCTGGCACTGCTGGGAAGTTAGGGAAGCTATCTTTCCTGGGAGTGTACCTTCATTCCTCATGCATCCCAGATTCTGAGGTTCCTCCAGTGGTTGAAGCTAGAAGTTTCAAAGAAAATCCCCAGATGAAAGAAAAACGTGATAGTGATAAGACTCCAAGTATGTCCATCAGTACACATTTATTAAGCACCCCCTGTGTCAGTAAATGCTCCAGCATATAAAGATTAGTGAGACCCAGGCTCGTCAGGATGTGATCTCAAGTATCACAGAAAGGTGTCGCTCTATTTGTAGGCTGGTGCAGAAGATGGGTGAAGGAACAGAATCCTTGGGGAGCCATTCAGCTATGGGGAGGTGGGAGGGAAGTGAGAAGTTCCTTGCCCCAGCCTCACTCTGTGACTCTGTCATCTTACTCCAGGACTCAGCATATGTGTTTTAAAGACTGAAGTGAACACCTCATATCTGTAGTCCTGAGTTTCCATGTCTGCCCTTCTGTCTCTCAG
Seq C2 exon
ACCCCTCAGCAGCCCGAGGTACTGGACGGCATTTGCGGGAATTCTGAGACAGTCTCTCATGTTCTATGGAAGTAGACACCAGGTAGAAAAAGTAATTTCCCATCCAAATTACGACTCTAAGACCAAGAATAACGACATTGCTCTCATGAAGCTGCAGACACCTTTGGCTTTTAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000385-Tmprss2:NM_015775:9
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=0.017
Domain overlap (PFAM):
C1:
PF154941=SRCR_2=PD(5.2=8.8),PF0008921=Trypsin=PU(19.2=77.2)
A:
NA
C2:
PF0008921=Trypsin=FE(25.8=100)
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:
GGGGTTCGCTCAGTGAAACG
R:
AAAGCCAAAGGTGTCTGCAGC
Band lengths:
335-1640
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: