MmuINT0162754 @ mm10
Intron Retention
Gene
ENSMUSG00000016942 | Tmprss6
Description
transmembrane serine protease 6 [Source:MGI Symbol;Acc:MGI:1919003]
Coordinates
chr15:78445284-78446302:-
Coord C1 exon
chr15:78446204-78446302
Coord A exon
chr15:78445398-78446203
Coord C2 exon
chr15:78445284-78445397
Length
806 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGC
5' ss Score
6.64
3' ss Seq
ATCACCCTCTGTAACCACAGTCT
3' ss Score
5.04
Exon sequences
Seq C1 exon
CCTGCCCTGGTGAGTTCCTCTGCTCTGTGAATGGACTGTGTGTCCCTGCGTGTGACGGGATCAAGGACTGCCCCAATGGCCTGGATGAGAGAAACTGTG
Seq A exon
GTGAGCAGCCTGACGCCTTCCCTCCTCTCTCCCTGCGCTGGACTAAGTCTACCTGACGTGTGCTTCCTCCTTGAGAACACCCAGGAGCCCACGGTTCTTGCACTGTGTCAGGATGGCAATGTGGAAAAGCAGCCTCCCCAGAGCCAGCCTACCCCCATAGCATCCCCCATTGAGGGAGTGTCTGGGACACACTGTGACCCTCAGCTGAGGTTACACCCTTTATCATAAGCAAATGTGCCAGCTGTCTGTCCTGGCCCATATTCTGAAAAAAAATAACCAGGAGGGGGAGGGCAGAGCCAAGCAGGGATGGCGGCTGGGCTGAGACTCTCAGGAGCTGGGGTCCAGGGTAGGTAGGAATCCTGTATCTTGTATCTCTCTCCTTAAATGGGGTGGGGCCCTTATCCCTCCAGCCTGAGGCAGGAACTGGTCCCCAGACTAGGGTTCTCAGGAAGAATTCTGAGCAAATGCTGGCTTCTGACCCCTAGAGTCACCATTCAGGACCAGAGAGAGTCAAGGTACCTGGGCAGCGATGCTCCATGCCTCCCTTGTCCATTCTCAGTTTGAGGAGAGAATCAGGGGAAGAGATTTCATATTTGACCCTGAACCTCTAATGACCTCAGGCCCATCAGTCACATCTGTTCCCATCAATGAAATGGGCCTTTCCAGGATGGCTGTGAGACGGGTGTGCAGAACTGAGAGTGTATGATGGTGGGCACATGATGCAGGGAGTATCCGATGCCATTGCAAAGCCCCAGCCTGGTTCCCCCCCCCCCAGCCCCTCCAACCATCACCCTCTGTAACCACAG
Seq C2 exon
TCTGCAGAGCCATGTTCCAGTGCCAAGAGGACAGCACGTGCATTTCACTGCCTAGAGTCTGTGACCGGCAGCCCGACTGTCTCAATGGCAGTGACGAAGAACAGTGCCAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000016942:ENSMUST00000017086:12
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:
PF0005713=Ldl_recept_a=PU(0.1=0.0)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=92.3)
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:
CCTGGTGAGTTCCTCTGCTCT
R:
TCTTGGCACTGTTCTTCGTCAC
Band lengths:
206-1012
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