MmuINT0164366 @ mm9
Intron Retention
Gene
ENSMUSG00000024173 | Tpsab1
Description
tryptase alpha/beta 1 [Source:MGI Symbol;Acc:MGI:96943]
Coordinates
chr17:25481596-25482160:-
Coord C1 exon
chr17:25481995-25482160
Coord A exon
chr17:25481862-25481994
Coord C2 exon
chr17:25481596-25481861
Length
133 bp
Sequences
Splice sites
5' ss Seq
ACCATGAGT
5' ss Score
1.22
3' ss Seq
TGAATATCTCTTCTCTTTAGGGA
3' ss Score
10.01
Exon sequences
Seq C1 exon
GTCCAGCTATGACACGAGAAGGCATTGTGGGGGGACAGGAGGCACATGGGAACAAGTGGCCCTGGCAGGTGAGCCTGCGTGCCAATGACACCTACTGGATGCATTTCTGCGGTGGCTCCCTCATCCACCCACAGTGGGTGCTCACTGCGGCACACTGTGTGGGACC
Seq A exon
ATGAGTCTACCTGGGCTTGGCAGAGTGGGACAAGGAATGGGTAGGAGAGTGGGGTAAGATGGGATCATCACACACCATCTCTGGGTTTCTGGAAGTGACACAGGCCTCCTAAATGAATATCTCTTCTCTTTAG
Seq C2 exon
GGATGTTGCTGACCCCAACAAGGTCAGAGTACAGCTCCGTAAGCAGTACCTCTATTACCATGACCACCTGATGAATGTGAGCCAGATCATCACACACCCCGACTTCTACATCGTCCAGGATGGGGCAGACATTGCCCTGCTGAAACTCACAAACCCTGTGAACATTTCTGACTATGTCCACCCTGTCCCCCTACCTCCTGCCTCAGAGACCTTCCCCTCAGGAACGTTGTGCTGGGTGACAGGCTGGGGTAACATCGACAATGGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024173-Tpsab1:NM_031187:2
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.089 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(19.8=83.9)
A:
PF0008921=Trypsin=PU(19.8=83.9)
C2:
PF0008921=Trypsin=FE(37.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGACACGAGAAGGCATTGTGG
R:
GGGTGTGTGATGATCTGGCTC
Band lengths:
256-389
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: