MmuINT0037765 @ mm9
Intron Retention
Gene
ENSMUSG00000022225 | Cma1
Description
chymase 1, mast cell [Source:MGI Symbol;Acc:MGI:96941]
Coordinates
chr14:56562536-56563498:-
Coord C1 exon
chr14:56563312-56563498
Coord A exon
chr14:56562687-56563311
Coord C2 exon
chr14:56562536-56562686
Length
625 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
CGTGGGGTTCTGTGTTCTAGGAG
3' ss Score
9.92
Exon sequences
Seq C1 exon
CTTAAAGAAGACGCCTTGACCACACAGTTCCTGTGATAACAGCTCTGCCACTCCCCTGCCCGCTGGGAGTAATAAGCCTAAGGCCCAAATATGAAGCCTGCAGCAGCCCTGAGGAGGCCCTCTGAGAGGATGCATCTTCTTACTCTTCATCTGCTGCTCCTTCTCCTGGGTTCCAGCACCAAAGCTG
Seq A exon
GTGAGTGCTGGGGTCGCTCCCTCTCCAATCTGCAGGGTCAGCTCCTAAAAGAACAAAGCTTAGTGTGTCATTTGGGACTCTCAAATGGGACTCATAGCCCTTCTCAAGACCTTCAGAGTGAAGTCTTCTTGTGGGATGTCCTGCCCATCCTTTAAGGCTGGCATGGTTTCTAGGAACACAGGTGCTTGTGCTGACTGACAGAGAATCCTAAAGTCATTGGGAGAAAGACAGATCCAGGATACCAGGCACATTCTCTTCATCTTTGAGTCCCAAGACAGAAGATCACCTTGTGATGTTGCTGTTCTGTGCCTCTGAGCAGGGCAGGGCAAGAGGAACCTGGACAGCATGTGCTGCAGGAAGGAAGATGGGCTAGGGACACAGCAGAGTGTAAAATATCAGAAGTAGGAGACTGCCTAAGTCTAAGGCAGGATTGGATCCTTGAGAAAGAAGTGACTTTGTGGCAGAGGGCGGGCTGTGGGTGAGAGGAGCTGACAGAGATGCCTGAGAGAAGTATGGCAGAGTTTAGGGCAAGAAGCCAAGGGAAGCCGCTCTCAACCTTTCCCCGACTGTGTACGAGAAAGAGAGCACCCATGCCTATCTCAGGTCGTGGGGTTCTGTGTTCTAG
Seq C2 exon
GAGAGATCATTGGAGGCACGGAGTGCATACCACACTCCCGCCCCTACATGGCCTATCTGGAAATTGTCACTTCTGAGAACTACCTGTCGGCCTGCAGTGGCTTCCTGATAAGAAGAAACTTTGTGCTGACTGCAGCTCACTGTGCGGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022225-Cma1:NM_010780:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.061 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0008921=Trypsin=PU(21.9=94.1)
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:
AAGAAGACGCCTTGACCACAC
R:
CTTCCCGCACAGTGAGCT
Band lengths:
334-959
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: