MmuINT0162766 @ mm9
Intron Retention
Gene
ENSMUSG00000016942 | Tmprss6
Description
transmembrane serine protease 6 [Source:MGI Symbol;Acc:MGI:1919003]
Coordinates
chr15:78283222-78284711:-
Coord C1 exon
chr15:78284575-78284711
Coord A exon
chr15:78283335-78284574
Coord C2 exon
chr15:78283222-78283334
Length
1240 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGA
5' ss Score
6.65
3' ss Seq
ATGGCTGTTCTTGGACTCAGACT
3' ss Score
5.13
Exon sequences
Seq C1 exon
GGTCTATGGGTGCAGCCGCCAGGAACCTGTGATGGAGGTGCTGGCATCGGGCTCCGTCATGGCCGTGGTGTGGAAAAAGGGCATGCATAGCTACTATGACCCTTTCCTGCTCTCAGTGAAGTCTGTGGCCTTCCAGG
Seq A exon
GTGAGAGTCTCCAAGGATGGAGGGGGGCACAGACAGGAACCCTGGTCTCTGGTGGCATGTCCTATGCCTTCTCTGTCCTATCAGCGATAGAGTGGCTCTGGAAGCCTTCAGTGAGCCGCAGTCCCTCCCCTCCCTTCCTACCTCTCTCTCCCTTTGTCCTTCACTCTCCTCCCAGGGCCCTGGCAGCCTCCAGCAAAGGTATCTGTCCTGGCAGACCCCAAGAGGTCTTGGCTCATCCCCAGCCTCAGTCAATTCTTCCTGCCTCTCACTTCCCATCCTACCCCTCCCTGCCCCCAATCTGTCCTCTGGGTTAGCAGAATTAACTTGAGGACCCTGCCTGAGCTATAGCTGGACTTCTCGTTAGAGCCGCTTGCCGTTTCTAGCTGCCATTCCTCTGAAGGTGTCTGATGGTTCTTCTTATTCTCCTGGGTCATCCCTGGGCTCTCCCACAGGCCTCCAGCTGGCCCTGCAGATGTGACAACTGGTGTTCACTTGGGTTCTCAGGCACCATAGTCTCATAGGAAAAACCAAGGAAGGGTTTGGGGCTCTGGACCCCCAGGGACAGGTGACCTGAGAACCCAAAGTCACACTGCTCTGCTGCTTCCACCCCTGAGCCTCTTACTGAGTGACTTGGCCAAGCCTCCCTCCTCTCCTGGAACTCTTATTAGTGTGTGTGCATATGTGTTATGTATGTATACATGTGTGTGTCGTGTGTATGGGGTGCACATGTGTGTGTGTTTTACATGTTGTGTGGTGTGTGTGGTATGGGTGGTATGTGTGTGTGGTGTGTGTATGGCATGGTGTGTGTATGTGCATGTGTGTGTACATATGTGTGTTTCTCTATGTGCATGTGTGTACATACATGTGCATATGTATGTGTGCATTGCTGGGATGGACCTCGGGGCCTTCACACATGTTAAGCAAATGCTCTAGTGTGGAGTCACACCCTCAGCTCCTCCCTCTTTGCAAAGGCAGCAGCTCTCCCTCTCCAGCTGCCCTGAGAGCATATTTTGCATACTGTTAAGTTTAGTGTGCTTGCCACTCAGCAGATGGAACGTGCTGTGTCCATCACATCTACTCGCTGCTGAGCTTTGTACTCTTCTCTCCATTTTGTGGATGTGGAAACTGAGGCACACTTACATAGCCATGTTGGGCCCTGAGCTTTGCTGTTAGTGGGGTGCAGTGAGACACTGGGGGGGGGCAGGAAGGGGCCCATCCTAATGGCTGTTCTTGGACTCAG
Seq C2 exon
ACTGCCAGGTGAACCTGACACTGGAGGGCCGGCTGGACACACAGGGCTTCCTCCGTACACCCTACTACCCCAGTTACTACTCTCCCAGTACCCACTGCTCCTGGCATCTCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000016942-Tmprss6:NM_027902:8
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:
PF0043115=CUB=PU(27.5=78.9)
Main Inclusion Isoform:
NA
Other Inclusion 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:
GTCTATGGGTGCAGCCGC
R:
GCCAGGAGCAGTGGGTACT
Band lengths:
241-1481
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: