MmuINT0043667 @ mm9
Intron Retention
Gene
ENSMUSG00000031896 | Ctrl
Description
chymotrypsin-like [Source:MGI Symbol;Acc:MGI:88558]
Coordinates
chr8:108457049-108457762:-
Coord C1 exon
chr8:108457679-108457762
Coord A exon
chr8:108457153-108457678
Coord C2 exon
chr8:108457049-108457152
Length
526 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGT
5' ss Score
9.65
3' ss Seq
CCAGCCCTATCTATGTTCAGGCT
3' ss Score
5.6
Exon sequences
Seq C1 exon
GACCATCTCAACACCATTCCTTATTTGTCACAATGCTACTGCTCAGCCTAACCCTTAGCCTGGTCCTCCTTGGCTCCTCCTGGG
Seq A exon
GTAAGTGGGCTGGGAACCGACCTTGGCTGTTCAGGGGCCCAGACAAGGAGCCAGCCTGATGAGAAGGGAACGGACAGTGTAAGCAAAAGGAAGGAACCTTCAGGGCTGAGAGTAAGGGAAGAGCCAGGGACCGGTCTCACAAATGAGGCGGGAGCTTGAGCCAGACCTAAGGAGGCTCAGGAACATATAAGAGATGTGTATAGACTAACAAAGCCTTCTAGCTGCATGGTAGACTGTGCAGGCCTAGAAAAACAGAGGGCAGGGAGATGATAGCAGGAATTAGAGAGAAAACTGGCCCAAGGTACATTAGGACTAGGTTGGTAGCTGTGAAAGCATGCACAGGACTTGAAGGCTGGTAGGGTGGGGTAACCAAGATAGCTGTGTATGCCTAAAAGGCACTCAAGGGAAGGCCTTGGAGTAATTCTCTTGGACCTCCTCCTGGATCTACAGCCTGGGGGCACCTTGAAGAAGGCATTAGGGAGAGGTAGACTGGGATTGGATTCTCACCAGCCCTATCTATGTTCAG
Seq C2 exon
GCTGTGGTGTTCCTGCCATCACGCCTGCACTGAGCTACAATCAGAGAATTGTCAACGGGGAGAATGCAGTGCCAGGCTCCTGGCCCTGGCAGGTGTCTCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031896-Ctrl:NM_023182:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0008921=Trypsin=PU(8.0=51.4)
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:
GACCATCTCAACACCATTCCT
R:
CTGGAGAGACACCTGCCAGG
Band lengths:
188-714
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: