MmuINT0043661 @ mm10
Intron Retention
Gene
ENSMUSG00000062478 | Ctrc
Description
chymotrypsin C (caldecrin) [Source:MGI Symbol;Acc:MGI:1923951]
Coordinates
chr4:141843671-141845272:-
Coord C1 exon
chr4:141845182-141845272
Coord A exon
chr4:141843797-141845181
Coord C2 exon
chr4:141843671-141843796
Length
1385 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
TCTCTCCTTCCCACCTCTAGCAC
3' ss Score
9.96
Exon sequences
Seq C1 exon
CCTCCAGCTGTGGGGACCCCACCTTCCCACCCAACCTGTCAGCCAGAGTGGTAGGAGGAGAGGATGCTGTCCCCAAAGCTGGCCTTGGCAG
Seq A exon
GTAAGCTTGCTTCGAGGCAGATACAGGGGTGGGAGGGGCAGGGCTGGGCATCCCCGGAGGGCTGACTCAAGGTCCTTCTGCAGGTCTCTCTTCAGTACCTCAGGGATGACACTTGGAGGCACACCTGTGGGGGCAGTCTCATCACCACCAGCCACGTCCTCACTGCTGCCCACTGCATCAAGTGAGTGGGAGCGACACCTGGAGACCAGCGAGGAGCCAACAGTCCAGGCACTGGGCTCTGTTAGCTGCTGTCCTCGGCTGACTCGCCTGTTTGTTAATTCAGTTGACATATCGCTTCTCGGCCTTTTGGCTAAGATCAAGTGTAGTAGTATTCAGTTGGCATATGAACAAGTCGACGTGTAATTTGTCAAACAAAAATGAGGCTGGAAGAAGGGGGAGGGCACAAGGTGGTTCTGGCTCAAGTTAAAAGAAGATAGCCTGGAAGTAGGAGGGAGGGAGGGAGGGATTAAAATCATAAAATAAGGGAACTGGGGGTATAGCTTAGTTGGTGGAGTTCCTTCTTAGCATACACAAAGCCCTGGATACATGTACACACACACACACACACCCTAATGTCACATAAAAACAGGTGTGCTAATACACACCTGTAACCTGGTCACTTGAGAAGTAGAGGAAGGGAGATCAGAGGTTCAGAGGTTGAAGACTATCCTTGGCTATGCATTTGAGGCCAGCCTGGGCTAAAACGAAGAAAGAAGGAAAGAGGCAGGGTAAAGAGGTAAAGAGGGAAGGAGGAAGTGGGGGGGAAAGAAAGAGATGGGAAGAAAGACCAATGGATCTGGGCAAAGACACAAAAGGAAGATCACTCACTGATCTGTGGGATTCCAGGATCAGCCTGAAGTGGGAGACTCTGAGAACTGAGGTGGCCTTCTGGGAGCACAGTGTGAGGATTGGGGGGGGGGGGCGGAAATAGGGGTGGGGGAGGAGTCAGGGCGTGTATGCAAGGACCACAGTATGACTAGAGAGAGACATTGCTGTGGGAAGGGCTTCAGGGTGTGAGTTAGCTCCTCAGCAGGTATGATGGTGCTCACTCGCCTGCCATCTCAGGGCAGGAGGAGCTTGTACTAGGGAGGACAGAGCCAAGCAGGTGTCACTCAGGTGCCTACAGCCACGTGGAAGCCTGAGTTGACAGCGGGCAGCTTGGCCTCTCCTAGTCTGCCAGTCTAGAGCAGCAAGGTAAAGTCCCCACCTGACCGAGACCCTGGCTCTAAGCTGTGGTTCTTCTCCAATCTTGTACAGGGGCTATGGGAACAGACTTCCCCCTTCCCGCAAAGCCCTGCTGTCAGAAGAGGACCAGGCCCCTAAAGCTCTCAGTTCCCTGTTGGCCCTGCCTGAGGCCATTTGACATCTCTCCTTCCCACCTCTAG
Seq C2 exon
CACAAACTTGACCTACCGCGTGGGCCTGGGGAAGTATAACCTGACAGTGGAGGATGAGGAAGGCTCCGTGTACGCGGAGGTGGATACCATCTACGTCCATGAGAAGTGGAACCGTCTTCTGCTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000062478:ENSMUST00000105781:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.125 A=NA C2=0.015
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(2.1=12.9)
A:
NA
C2:
PF0008921=Trypsin=FE(18.1=100)
Main Inclusion Isoform:
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:
CACCTTCCCACCCAACCTGTC
R:
CACAGCAGAAGACGGTTCCAC
Band lengths:
198-1583
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