MmuINT0043666 @ mm10
Intron Retention
Gene
ENSMUSG00000062478 | Ctrc
Description
chymotrypsin C (caldecrin) [Source:MGI Symbol;Acc:MGI:1923951]
Coordinates
chr4:141838239-141838805:-
Coord C1 exon
chr4:141838653-141838805
Coord A exon
chr4:141838315-141838652
Coord C2 exon
chr4:141838239-141838314
Length
338 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGT
5' ss Score
7.07
3' ss Seq
ACGGGCTTCTGCTTCTCCAGAAA
3' ss Score
6.87
Exon sequences
Seq C1 exon
GGAGACTCTGGTGGCCCACTGAACTGCCCAGTGGAAGACGGCTTGTGGCAGGTGCATGGCATCGTGAGCTTTGGTTCCAGTAGAGGCTGCAACACATACAAGAAGCCCGTGGTCTTCACCCGTGTGTCTGCCTATATTGACTGGATCAAGGAG
Seq A exon
GTGGGTGTCCCCTGCTCCCATCCCTGGGCCCCTGTGCCCACCTTCTCATGCAGCCTCCTTCACTGGCCACTTAAGACCACATTCAAGTTCACCCTTCCATTCACTGAGAGACCCTGAATCCTTCTTGGAGCAGGCCTTGAGTCAGGAATGGGGGGAGGGGAGGCTCCCAGAGGGAGGCACATGGCTTAAGGGCATGGGGACAGAGGCAGGAGGTACAGGATGTGTTCTGAGTCCATAAGCACCAAGCTCTGAAGAGGTGACAGACACCCCCCCCCATGTGCCTCCTGGGAAAAGGTAGCATGCCCCAGGATCTCTCACACGGGCTTCTGCTTCTCCAG
Seq C2 exon
AAAATACAACTGTGAAGAGACGGTTCCAGAAGTCTCGACGCCCATCTCCCAACAGCAATAAAGCTCCTTCCATAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000062478:ENSMUST00000105781:6
Average complexity
IR
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=PD(20.7=94.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGACTCTGGTGGCCCACT
R:
GAAGGAGCTTTATTGCTGTTGGG
Band lengths:
222-560
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