MmuINT0162758 @ mm10
Intron Retention
Gene
ENSMUSG00000016942 | Tmprss6
Description
transmembrane serine protease 6 [Source:MGI Symbol;Acc:MGI:1919003]
Coordinates
chr15:78440608-78442553:-
Coord C1 exon
chr15:78442282-78442553
Coord A exon
chr15:78440745-78442281
Coord C2 exon
chr15:78440608-78440744
Length
1537 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGC
5' ss Score
6.64
3' ss Seq
CCTCATTTTTGCCTCTGCAGGTC
3' ss Score
10.93
Exon sequences
Seq C1 exon
CATGGCCTCCCCGAAGCTGTGGACCGTGTTCCTGGGAAAGATGCGGCAGAACTCGCGCTGGCCAGGCGAGGTGTCCTTCAAGGTGAGCCGTCTGTTCCTGCACCCGTACCACGAGGAGGACAGCCATGACTACGACGTGGCCCTGCTGCAGCTCGACCACCCCGTGGTGTACTCGGCCACTGTGCGCCCCGTCTGCCTGCCTGCCCGCTCCCACTTCTTTGAGCCAGGCCAGCACTGCTGGATCACAGGCTGGGGAGCCCAGCGAGAGGGTG
Seq A exon
GTGAGCTGGGGCAGGTGGCGGGATCTGGGATCTTGGGTGGAGGCTTGGAAGAGGGCTGACAGGGTCCCTCCGCCAGGCCCTCCAGCTTCAGGATCGATGAGAGTAGACTTTAGAAGAGAGAAGTCTGTGACAGGACCTGTGGGTCCTGCTCCCCCAATCCCCTCCTTTGCAGGAAGCATAAATACGAACTTAAGGATAGACAGGGATGCCACAGCTTTGCAACATGAACCCTGGGGTTGAGGGGTGGGGATGAGATGAGGCTCTTCATTACTGCAAACTGCAAGGAGGGGAAGATGTCATATAAGCCACTCGGCTTAGGAGGTAGGTACTATGGACCCATTTTGTTGATGAGAAAACTGAGGCCGAGTCCCTTAGTTACAGAAAGCCACCCAGTCAAGACAGCTGGACGGGGACTCGGATCTAGAACTGGCTTCCCTATAGGGTTCAGGGTTTCCTGTTCCTGCTGCTAGGAAGGGTATTCCCCACTCCCGGCCTTAACTGACAGAAGCTGCCCAGTCTGGAGGCTGACCCCCCAGTTCTGCAAAGGCCGGCTTGGCTGGCTTATCTGCAGTCTTGTCTGTAACTGTGGCACGTGATGATAGACCACTTGGAAGTAGGGGGGGAGGAGCAGGTATGTTGTGGTTGGAGCTTGAACGAGGGCCTCATGTGTGCCAAGACAAATGTCCCACCGTCCAACCGCACCCTGACCTCTACAGAGATAGCCTAAAGATGGGGACACTGAAGCTCAGAAAGGTGACCTGGCCAAGATGAGGGTGGCAAAGCAAAGGCATGCTTGAGTGGTTGCTCACTCAGCAACACACACACGAGCACCTACTGTGTGTCAAGCATGGAAGCAGACAAGGAGGGTGACAGTGAGAACATTAAGGGGAAGAAAGACCATGGTATGAGCTACCACAGACGGGGAACAGGAAACAGCCCAGGGAAGGCACCTGCCCAGCGCAGCCAGAAAGGCGTCAGGAGGAGGGGGTCTATGGTGAGGCTGCAATGACAGCTAAGAGCCTGGGAAGCCCGTGTTGGGGGGAGAGGCACAGGTGTCCGGCAGGCAGATATGAGAGTGTTCCCAGCAGCCAGCTGCAGGGGAAGCAGGGCAGATGCGGCTAGGGGAAGGTCTGGAGGACAGGCGCTCTTGGGGGCCACCACAGGAATCATGGGTGAGGAGTCCTCCCCACCTGCATCTCAGAACCAAAGGGATTTCAAAACCCCAATGTCTGGCCCAGCGCTGGACTGGTGGATGCTATCACCAGGACAAGATCTGGACTGAGCAGAGGGGCCGCTAAGCAGTCAAGAGCACAGTGAAGGGCTTGCACATGTGTTAGAAAGCATCCCCCCAGGGACCACAACAGAGCAGATGGAGTCTGGAACCCCCTGAGGAGAGGCATGAGGGAGGGGAGTGCTCTGACAGGCTTTGTGGAGGGTGAGGGGTGAGAGTGTTGTCACCAGCCAGCACTGACTGGGCAGAGTGGCAAGGTCTTCACATGGGGAGCCCATTCCCAGCCCCTCATTTTTGCCTCTGCAG
Seq C2 exon
GTCCGGTGAGCAACACCCTGCAGAAGGTGGACGTACAGCTGGTCCCTCAGGACCTCTGCAGTGAGGCCTACCGCTACCAGGTGTCCCCACGCATGCTCTGTGCTGGCTACCGCAAGGGCAAGAAAGATGCCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000016942:ENSMUST00000017086:16
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:
PF0008921=Trypsin=FE(39.6=100)
A:
NA
C2:
PF0008921=Trypsin=FE(19.6=100)
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:
GAGGTGTCCTTCAAGGTGAGC
R:
CTGGCAGGCATCTTTCTTGC
Band lengths:
342-1879
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