MmuINT0043662 @ mm9
Intron Retention
Gene
ENSMUSG00000062478 | Ctrc
Description
chymotrypsin C (caldecrin) [Source:MGI Symbol;Acc:MGI:1923951]
Coordinates
chr4:141399586-141401013:-
Coord C1 exon
chr4:141400916-141401013
Coord A exon
chr4:141399712-141400915
Coord C2 exon
chr4:141399586-141399711
Length
1204 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
TCTCTCCTTCCCACCTCTAGCAC
3' ss Score
9.96
Exon sequences
Seq C1 exon
GTCTCTCTTCAGTACCTCAGGGATGACACTTGGAGGCACACCTGTGGGGGCAGTCTCATCACCACCAGCCACGTCCTCACTGCTGCCCACTGCATCAA
Seq A exon
GTGAGTGGGAGCGACACCTGGAGACCAGCGAGGAGCCAACAGTCCAGGCACTGGGCTCTGTTAGCTGCTGTCCTCGGCTGACTCGCCTGTTTGTTAATTCAGTTGACATATCGCTTCTCGGCCTTTTGGCTAAGATCAAGTGTAGTAGTATTCAGTTGGCATATGAACAAGTCGACGTGTAATTTGTCAAACAAAAATGAGGCTGGAAGAAGGGGGAGGGCACAAGGTGGTTCTGGCTCAAGTTAAAAGAAGATAGCCTGGAAGTAGGAGGGAGGGAGGGAGGGATTAAAATCATAAAATAAGGGAACTGGGGGTATAGCTTAGTTGGTGGAGTTCCTTCTTAGCATACACAAAGCCCTGGATACATGTACACACACACACACACACCCTAATGTCACATAAAAACAGGTGTGCTAATACACACCTGTAACCTGGTCACTTGAGAAGTAGAGGAAGGGAGATCAGAGGTTCAGAGGTTGAAGACTATCCTTGGCTATGCATTTGAGGCCAGCCTGGGCTAAAACGAAGAAAGAAGGAAAGAGGCAGGGTAAAGAGGTAAAGAGGGAAGGAGGAAGTGGGGGGGAAAGAAAGAGATGGGAAGAAAGACCAATGGATCTGGGCAAAGACACAAAAGGAAGATCACTCACTGATCTGTGGGATTCCAGGATCAGCCTGAAGTGGGAGACTCTGAGAACTGAGGTGGCCTTCTGGGAGCACAGTGTGAGGATTGGGGGGGGGGGGCGGAAATAGGGGTGGGGGAGGAGTCAGGGCGTGTATGCAAGGACCACAGTATGACTAGAGAGAGACATTGCTGTGGGAAGGGCTTCAGGGTGTGAGTTAGCTCCTCAGCAGGTATGATGGTGCTCACTCGCCTGCCATCTCAGGGCAGGAGGAGCTTGTACTAGGGAGGACAGAGCCAAGCAGGTGTCACTCAGGTGCCTACAGCCACGTGGAAGCCTGAGTTGACAGCGGGCAGCTTGGCCTCTCCTAGTCTGCCAGTCTAGAGCAGCAAGGTAAAGTCCCCACCTGACCGAGACCCTGGCTCTAAGCTGTGGTTCTTCTCCAATCTTGTACAGGGGCTATGGGAACAGACTTCCCCCTTCCCGCAAAGCCCTGCTGTCAGAAGAGGACCAGGCCCCTAAAGCTCTCAGTTCCCTGTTGGCCCTGCCTGAGGCCATTTGACATCTCTCCTTCCCACCTCTAG
Seq C2 exon
CACAAACTTGACCTACCGCGTGGGCCTGGGGAAGTATAACCTGACAGTGGAGGATGAGGAAGGCTCCGTGTACGCGGAGGTGGATACCATCTACGTCCATGAGAAGTGGAACCGTCTTCTGCTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000062478-Ctrc:NM_001033875:3
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=FE(13.8=100)
A:
NA
C2:
PF0008921=Trypsin=FE(18.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCTCTCTTCAGTACCTCAGGGA
R:
CAGCAGAAGACGGTTCCACTT
Band lengths:
222-1426
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
Other AS DBs: