MmuINT1007317 @ mm10
Intron Retention
Gene
ENSMUSG00000022225 | Cma1
Description
chymase 1, mast cell [Source:MGI Symbol;Acc:MGI:96941]
Coordinates
chr14:55941453-55942380:-
Coord C1 exon
chr14:55942126-55942380
Coord A exon
chr14:55941798-55942125
Coord C2 exon
chr14:55941453-55941797
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
GGAGACTCTGGAGGACCTCTGCTGTGTGCTGGGATAGCCCAAGGCATTGCATCCTATGTACATCGGAATGCAAAGCCCCCTGCTGTCTTTACCAGAATCTCCCATTACAGGCCCTGGATCAATAAGATCTTGAGGGAGAATTAACTCTGGAGCTTTTGCCAGCCTGTGAGGAAATCTGGAACTGGAATAGTGCAGGTTTTGTGTGCCATGCGATCTGGCCTGTCTGTAGTTCCTGCTGAAGCCCTGCCTGGTCCCTGAGCTTCCAGAAGGTTCTTACAAGTCACAGAATGTTCCTAAAAGCCACCATCTTCATTAACCTCAATAAAGACCCAGATTGTCAACTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022225:ENSMUST00000022834:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
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
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
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
- 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