MmuINT0037766 @ mm10
Intron Retention
Gene
ENSMUSG00000022225 | Cma1
Description
chymase 1, mast cell [Source:MGI Symbol;Acc:MGI:96941]
Coordinates
chr14:55942563-55943849:-
Coord C1 exon
chr14:55943699-55943849
Coord A exon
chr14:55942699-55943698
Coord C2 exon
chr14:55942563-55942698
Length
1000 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
CCTATCCTTTCTCACAACAGGTC
3' ss Score
10.32
Exon sequences
Seq C1 exon
GAGAGATCATTGGAGGCACGGAGTGCATACCACACTCCCGCCCCTACATGGCCTATCTGGAAATTGTCACTTCTGAGAACTACCTGTCGGCCTGCAGTGGCTTCCTGATAAGAAGAAACTTTGTGCTGACTGCAGCTCACTGTGCGGGAAG
Seq A exon
GTGAGACAAGGCGCTGCTTATCCTTAATACGAAGTAAACCACGGGATAGCAACCTGGGACACATGCAAGTGGACCTGAGAGGGATCCTGAGCCTAGGTCAACTGACAAATGTCATTAAATAGATGCCATGAGCCTCAATCACTATAAATGCAGCTCCCCTCAGAGGAGAGAGAGGATTCTCCAATATGGCCCCTCCATGTCCCCTTAAACCTGGAAGATGCCCACAGCTCACTTGTCGGGATCTACCCAGTAGTTTTCTGGGGGTCTCTCCTTGCTATTTTCAAGAACACCGGCCATCAGTTCCAAGGTCCACAGCCCAACATTTTTAAGGAAGGAGGAACAAGCCCACAGGACCCTTTCTATTTCCTGAACTCCTGACTAGTTTTTGTTGTAGAAAATGGACCCCCTTCAAATTCTCCAAATTGGGGAGGATTAACCCTACCCCCAGGGCCTCCATTTCTTGCTCATTCCCCAGCAATTCCTGGGGAGCCAGCTCTGGGAAGTGTGTCTGCTCCAGAAAATACCCTTTCTCCAAGCCTTTTCTCTCCTGACTCAGGCCCAAGTGCAGGTATTTCCACATTGCTCTCCCGATTAAACACTGAGCCTGTCAACACCACAAGGAGCCCAGAAAGTGGGGATTGGAAGAGGCCCCTGACCCAGGGAAGAATTCCAGCCTTTTTCCAAAATACATTCATCTCTGAGCCTGTCACTGTCTCTGCTTGCCCTTTCTTTTTGTTGTTGCCAATGTTGGGTTTATTGGTGGCTTGCTTTTGAGGCACAGTCCCCTGTAGCTCAGGCTGGCCTCAAACCAACTATGTAGCTAAGGATGATGACCTTGACTTCTAATCCCCCTGCCTCCACCACCCAAGTGCAGAGATTATAGGCATGAACCACCATGCCAGTTTATACAGTGCTGTGCCTCAAACTCAAAGATTCCCGAATGCTAGGCAAGCACTCTACCCATTGCTCCATCCTCAGGCCCTATCCTTTCTCACAACAG
Seq C2 exon
GTCTATAACAGTCCTCCTAGGAGCCCATAACAAAACATCTAAAGAAGACACGTGGCAGAAGCTTGAGGTGGAAAAGCAATTCCTTCATCCAAAATATGATGAGAATTTGGTTGTCCACGACATCATGCTACTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022225:ENSMUST00000022834:2
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=PU(21.9=94.1)
A:
NA
C2:
PF0008921=Trypsin=FE(20.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAGATCATTGGAGGCACGGA
R:
CTTCAGTAGCATGATGTCGTGGA
Band lengths:
286-1286
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