MmuINT0043672 @ mm9
Intron Retention
Gene
ENSMUSG00000031896 | Ctrl
Description
chymotrypsin-like [Source:MGI Symbol;Acc:MGI:88558]
Coordinates
chr8:108455894-108456333:-
Coord C1 exon
chr8:108456200-108456333
Coord A exon
chr8:108456117-108456199
Coord C2 exon
chr8:108455894-108456116
Length
83 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
CCCCTTTTCTTCCCTTTCAGGGT
3' ss Score
13.94
Exon sequences
Seq C1 exon
GCAATGTGACACCAGCTCGCCTGCAGCAAGTTGTTCTACCCCTGGTCACTGTGAATCAGTGTCGGCAGTACTGGGGTGCACGCATTACCGATGCCATGATATGTGCAGGTGGCTCAGGCGCCTCCTCATGTCAG
Seq A exon
GTAAGCACCCTGTCCTCCGCACTGTCCAGTGGGACACGTCCCCAAACTGCCATGCTGACTTCTCCCCTTTTCTTCCCTTTCAG
Seq C2 exon
GGTGACTCAGGAGGCCCTCTTGTCTGCCAGAAGGGAAACACCTGGGTGCTTATTGGGATTGTCTCCTGGGGCACTAAGAACTGCAACATACAAGCACCGGCCATGTACACTCGGGTCAGCAAGTTCAGTACCTGGATCAACCAAGTCATGGCCTACAACTAAACTGTCCACAGATCCGTTCCCCATCTCAATCTAATAAACATACTCGTCTCAGTTTCTCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031896-Ctrl:NM_023182:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(19.6=100)
A:
NA
C2:
PF0008921=Trypsin=PD(20.1=83.3)
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:
TGCCATGATATGTGCAGGTGG
R:
GGTACTGAACTTGCTGACCCG
Band lengths:
175-258
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: