MmuINT0043665 @ mm10
Intron Retention
Gene
ENSMUSG00000062478 | Ctrc
Description
chymotrypsin C (caldecrin) [Source:MGI Symbol;Acc:MGI:1923951]
Coordinates
chr4:141838653-141840396:-
Coord C1 exon
chr4:141840251-141840396
Coord A exon
chr4:141838806-141840250
Coord C2 exon
chr4:141838653-141838805
Length
1445 bp
Sequences
Splice sites
5' ss Seq
AACGTGAGT
5' ss Score
9.54
3' ss Seq
GGCCTGCTGTTCTGCTGCAGGGA
3' ss Score
8.74
Exon sequences
Seq C1 exon
CCAACGGTCCCATTGCTGAAGTGCTCCAGCAGGGTCTGCAGCCCATAGTGAACCACACCACGTGCTCCAGGTTGGACTGGTGGTTCATCAAGGTCCGGGAGACGATGGTGTGCGCTGGTGGTGACGGTGTCATCTCTGCCTGTAAC
Seq A exon
GTGAGTGTCCTGACCCCACACCAGGGGGCAGGAGGGAGGTGGGCAGAGCAGGGTGAGGGTGGAGCAAATCACACCCCTCCCTCCAAGAAGCCAGCCCCTGGTGAACCATGCGGGCCTAAGGGAAAGCCATCACTCCAGTCCACCCCTTTATGCTCACCCCCAGTGCATGGGGAGAGGCAGAAGGCTGGACCTGGGCCACTCAAGTTCAAGTCCCAATGCCAGCAACTGGGAGGGCTGCTGTCGTTCTCTCTAAAGTGCCAGCAGGGGAAAGGTGGTTTAAAGGGGAAAGGCCCTTTCTACCAAGTCTGGTGACCCGAGTTTGGTCCCCAGAACCCACATGGTGGAAGGAGAGGATCAGCTCCCACAGTTGCCCTGTGATCTCCACACATGCCCTGTCGCATGTATGCATGTACACATGGGTGCATGTGCACGTGTGCACGTGCACGCACACACACAATGAAAATGAAAAAATTACTGGGGCTAGGGCCAGAGAGAGAATTCAGTTGGTAGAGTTTGCCTTGCAAGCAGGAGGAGCTGAACTCCATCCCCGGAACTCACGTTATGAAAATGCCAAGCATGGTGGTCCGCCTGAATCCCAGTGCTAGGGAGGTGGAGACGAGAATTTCTGGGGCTCACTGGCCAGTATGTCTAGCCCACTTGGTCAGCTCCAGGCCAGAGAGTGTGTCTTCTGGCTTCACACATATACACATACATCTGCATGGACACTGGTACAAATACCTGAATGCACACACAAACACACACACACTCTCACACACACAGACAGACATGCACACATGCATACATTCATGCTTACACACACATATACACATACCTTCATACATACACACATCACCTTCATCCACACATACACATGCATGCATACCTTTGCTCTCACAAACACACATTCATGCACACATACATACACACATGCATGTACATACACACATCAGAAATGAAGCCACAGTAACCACTTCACAGAACCACTGTGAACATGTCTAGCAGCACAAAGTGGCTCCCTTCGCGTCCCATACGTGCTCCTAAATTAGGCTCCAGTCGGAGGTGACAGGGACCCAGAGTATGAGCAGAACCACAAAACCTCCAGAACCTTCTGCAGCACGTCTATCCTTCTTTCCCAGGCCTCTTCAGGGTTCCCAGCCTCCTTGACTCTCTGGGCAGCACACAGCAGCTTACACAGTCCCCAAACAGTCAGGGAACCTGAGGCCGATCCTAGATCACCGCAAATGGAGAGCTAGCTGACACCTCAGGGTTGGCCTCACAGGATGAGGCCAAGGTAGCCCCTACACTTTCTCTGTCAGAATCCTCATAGCTAGCCTGAGGCCTGAATACTAAAATATGGAGGCGGAGGATCCAGCTTGCATCCCCCACAGCAGCCAAAGACAGCCTATCGGGGTGGCCTAGAGCTGAGGCCTGCTGTTCTGCTGCAG
Seq C2 exon
GGAGACTCTGGTGGCCCACTGAACTGCCCAGTGGAAGACGGCTTGTGGCAGGTGCATGGCATCGTGAGCTTTGGTTCCAGTAGAGGCTGCAACACATACAAGAAGCCCGTGGTCTTCACCCGTGTGTCTGCCTATATTGACTGGATCAAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000062478:ENSMUST00000105781:5
Average complexity
IR
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=FE(20.7=100)
A:
NA
C2:
PF0008921=Trypsin=PD(20.7=94.1)
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:
AACGGTCCCATTGCTGAAGTG
R:
TCCTTGATCCAGTCAATATAGGCA
Band lengths:
296-1741
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