MmuINT0043664 @ mm9
Intron Retention
Gene
ENSMUSG00000062478 | Ctrc
Description
chymotrypsin C (caldecrin) [Source:MGI Symbol;Acc:MGI:1923951]
Coordinates
chr4:141396166-141397548:-
Coord C1 exon
chr4:141397412-141397548
Coord A exon
chr4:141396312-141397411
Coord C2 exon
chr4:141396166-141396311
Length
1100 bp
Sequences
Splice sites
5' ss Seq
GGAGTGAGT
5' ss Score
6.05
3' ss Seq
CATGGCTGCTCTCTCCCCAGCCA
3' ss Score
8.88
Exon sequences
Seq C1 exon
GAACGACATCGCCATCATCAAGTTGGCTGAGCCTGTGGAGCTGAGCGACACCATCCAGGTGGCCTGTATCCCAGAGCAAGATTCCTTGCTGCCTGGGGACTATCCCTGCTATGTCACTGGCTGGGGTCGCCTCTGGA
Seq A exon
GTGAGTACAGCCAGCACAGAGAAATCCCCGAGGCTTCGCGAAGGAGGTGCCACTGTCGATCAGCATGTCTCCCATGTGATAATAACAGCTAGTACTTATTATTTAACCCAGACCACGTGACAAGCATGTCACAAGTGAAGGTGACGGCTGACACAAGGATTAAATAGGCTAGAACAGGGATGGGCTCATTGCCTTAGCCATAGAAATAAGCTAAAAATAAGAGGCAGGCCTGTGATGCAAAACTTGAAAGGTGGAAGTGGAAAATCAAGAGTTCAAGGTTACTTCACAGGGAGGTTAACCTAGGTTACATGAGAACCTGTATCAAAATAATAAACTAACTGTCCCCTTAAGGGTAGGAGGCTAGATCTCATGGCAAACACATGCCCAAAAAGATGCCTGAACCAGATGGTAGAATGGGAATTAGAGCTATTAAGACTTGGAGATAGAGCCGGGCGTGGTGGTGCACGCCTTTAATCCCAGCACTTGGGAGGCAGAGGCAGGCGGATTTCTGAGTTCGAGGCCAGCCTGGTCTACAGAGTGAGTTCCAGGATAGCCAGGGCTACACAGAGAAACCCTGTCTCGAAAAACCAAAAAAAAAAAAAAAAAAAGACTTGGAGATAGCAGAGGTTAGCTCTTAGGACCTCCTGGGGGAGGAAAGTCTTTAGATATGGCCCCTAAAGATGGAGTGAAGGAAGGAAATGATGGACAAGGCCCCAAGATCCCAGCTGAGGCAGAAGGGCCACAGGTCAACCTGCCTCAGTACAGAGTGAGTCAGAGACCAGCCTGGGCAACACAGGGAGACCCTGTCACAAAATGAAAAGTTAAGAGAAGCCTAGGGATTTAGTTCAGTGGTAGAGTGCTTGCCTAGCCTACTCAGAGGCCTGAGTTTGATCCTTGGCACAGTAAAACATAAAGGGGAAGAAAAATTAAGACTTCATAAAGGCACATAGTCCCCCAAGGAACTGTGACCCAAAGACATGAACCATCTCAATGAGGGGCATACCCATGGTTCCCACAACCTTCTGTACACTGGCTGGAGGTCAGAGCTAGGGCTGCGCCGAGGGCCAGGCTAACTCCCTGCATGGCTGCTCTCTCCCCAG
Seq C2 exon
CCAACGGTCCCATTGCTGAAGTGCTCCAGCAGGGTCTGCAGCCCATAGTGAACCACACCACGTGCTCCAGGTTGGACTGGTGGTTCATCAAGGTCCGGGAGACGATGGTGTGCGCTGGTGGTGACGGTGTCATCTCTGCCTGTAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000062478-Ctrc:NM_001033875:5
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(19.8=100)
A:
NA
C2:
PF0008921=Trypsin=FE(20.7=100)
Main Inclusion Isoform:
NA
Other Inclusion 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:
ACGACATCGCCATCATCAAGT
R:
TACAGGCAGAGATGACACCGT
Band lengths:
279-1379
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: