MmuINT0037768 @ mm9
Intron Retention
Gene
ENSMUSG00000022225 | Cma1
Description
chymase 1, mast cell [Source:MGI Symbol;Acc:MGI:96941]
Coordinates
chr14:56560288-56561217:-
Coord C1 exon
chr14:56560963-56561217
Coord A exon
chr14:56560635-56560962
Coord C2 exon
chr14:56560288-56560634
Length
328 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CTCTGCCCCACCCCCAACAGGGA
3' ss Score
8.65
Exon sequences
Seq C1 exon
TTGAAGGAGAAAGCCAAGCTAACCCTAGGTGTGGGAACCCTCCCACTCTCTGCCAACTTCAACTTTATCCCACCCGGGAGAATGTGCAGGGCAGTTGGCTGGGGCAGAACAAACGTGAATGAGCCAGCCTCCGACACACTGCAGGAAGTAAAGATGAGACTCCAGGAGCCCCAAGCCTGCAAACACTTCACCAGTTTTCGACACAATTCCCAGCTGTGTGTGGGCAACCCCAAGAAGATGCAAAATGTATACAAG
Seq A exon
GTGAGTCTCTTGCCAGGTTTTCCTAAAAGCACTCCTGGGAGCCAGAGTTCTAGAAGCAGGGTGGGGTGGAAGATTGTCAGCTAATCATAGTGTTTAGGAATCACCAAGTGAGGAAACAAAGTATCCATCTTCCCAGGGCTATCCTGGGTCACCTCTTCTGCTGTTCAGACAGAGAACATGGGGTGATATGAGGAAGATAAGTAGGCTGCCCCCCAAGGCAATGATGTGGCATCAGGCTCTAGACCTAACTGCAAGATGAAATGGGTGGGTAGAGGTAGAGGCTGCCCTCCTATCCATTCATGTTTCCTCTCTGCCCCACCCCCAACAG
Seq C2 exon
GGAGACTCTGGAGGACCTCTGCTGTGTGCTGGGATAGCCCAAGGCATTGCATCCTATGTACATCGGAATGCAAAGCCCCCTGCTGTCTTTACCAGAATCTCCCATTACAGGCCCTGGATCAATAAGATCTTGAGGGAGAATTAACTCTGGAGCTTTTGCCAGCCTGTGAGGAAATCTGGAACTGGAATAGTGCAGGTTTTGTGTGCCATGCGATCTGGCCTGTCTGTAGTTCCTGCTGAAGCCCTGCCTGGTCCCTGAGCTTCCAGAAGGTTCTTACAAGTCACAGAATGTTCCTAAAAGCCACCATCTTCATTAACCTCAATAAAGACCCAGATTGTCAACTGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022225-Cma1:NM_010780:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.106 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(38.4=100)
A:
NA
C2:
PF0008921=Trypsin=PD(17.8=81.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGATGAGACTCCAGGAGCCC
R:
AGGGCTTCAGCAGGAACTACA
Band lengths:
350-678
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: