MmuINT0043668 @ mm9
Intron Retention
Gene
ENSMUSG00000031896 | Ctrl
Description
chymotrypsin-like [Source:MGI Symbol;Acc:MGI:88558]
Coordinates
chr8:108456880-108457152:-
Coord C1 exon
chr8:108457049-108457152
Coord A exon
chr8:108456960-108457048
Coord C2 exon
chr8:108456880-108456959
Length
89 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATG
5' ss Score
9.43
3' ss Seq
TATCTAACTTTTGACCCTAGGAT
3' ss Score
8.66
Exon sequences
Seq C1 exon
GCTGTGGTGTTCCTGCCATCACGCCTGCACTGAGCTACAATCAGAGAATTGTCAACGGGGAGAATGCAGTGCCAGGCTCCTGGCCCTGGCAGGTGTCTCTCCAG
Seq A exon
GTAATGCACCCTATGGGTGGGTTGGGGTCCTGGGTGCTTTAGGCTATGGGTAACTTAAGCCCATTCATGTATCTAACTTTTGACCCTAG
Seq C2 exon
GATAACACCGGCTTCCACTTCTGCGGTGGTTCTCTCATCAGTCCGAACTGGGTGGTCACGGCTGCCCACTGCCAAGTCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031896-Ctrl:NM_023182:2
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:
PF0008921=Trypsin=PU(8.0=51.4)
A:
NA
C2:
PF0008921=Trypsin=FE(11.6=100)
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:
CTGTGGTGTTCCTGCCATCAC
R:
CAGCCGTGACCACCCAGTT
Band lengths:
167-256
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: