MmuINT0043659 @ mm10
Intron Retention
Gene
ENSMUSG00000031957 | Ctrb1
Description
chymotrypsinogen B1 [Source:MGI Symbol;Acc:MGI:88559]
Coordinates
chr8:111686519-111687234:-
Coord C1 exon
chr8:111687101-111687234
Coord A exon
chr8:111686749-111687100
Coord C2 exon
chr8:111686519-111686748
Length
352 bp
Sequences
Splice sites
5' ss Seq
ATGGTACAG
5' ss Score
3.5
3' ss Seq
TCCTTTACCTTTCTCTACAGGGT
3' ss Score
11.45
Exon sequences
Seq C1 exon
CCCTCAAGACCCCTGACAAGCTGCAGCAGGCTGCCCTGCCCATCGTGTCCGAGGCTAAGTGCAAGGAGTCCTGGGGTTCCAAGATCACCGATGTGATGATCTGCGCAGGCGCCAGTGGCGTCTCTTCCTGCATG
Seq A exon
GTACAGCCTCCTCCCACCCCCGTGACCCACTCACAGACCTGCCTAACCTGATCCGGCTAGCGGAGAGCACAGGGCCCAGAAAAGGATGGGCTGAGGCTAATAGACACCCCAAGGAGGCATCTCTGCCCAGACGGGCGTTGTACTGCCCGTACAGAACCCACTCAACCTGTGAGCTGTCTGTGTCTCTTACTCGCAGAGGGAAGATAAGGGTGTAGGTCTTCCCCAGGAGTACAGGAGCACAACTGGGGGTGCCAGTGAACCCCAAGGAACTGCCCTACACTTTGCCCCGCACCCCACCGGGTCTGGGTATCCTTGTCAGGCTTGAAGACAAGTCCTTTACCTTTCTCTACAG
Seq C2 exon
GGTGACTCTGGTGGCCCCCTCGTCTGCCAGAAGGACGGAGTCTGGACCCTGGCAGGCATTGTGTCCTGGGGCAGTGGTTTCTGCTCCACTTCCACCCCTGCCGTGTATGCCCGAGTCACTGCCCTCATGCCCTGGGTTCAGGAGATCTTGGAAGCCAACTAAGTACACGGTCCTTTCCTCTTCCCTCTTCCTCCCCCTCCGTGCATCTACAATAAAAATCATCTAATTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031957:ENSMUST00000034435:6
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=FE(19.7=100)
A:
NA
C2:
PF0008921=Trypsin=PD(20.2=83.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCAAGACCCCTGACAAGCTG
R:
ATTGTAGATGCACGGAGGGGG
Band lengths:
345-697
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