MmuINT0028738 @ mm9
Intron Retention
Gene
ENSMUSG00000026509 | Capn2
Description
calpain 2 [Source:MGI Symbol;Acc:MGI:88264]
Coordinates
chr1:184402652-184403123:-
Coord C1 exon
chr1:184403055-184403123
Coord A exon
chr1:184402731-184403054
Coord C2 exon
chr1:184402652-184402730
Length
324 bp
Sequences
Splice sites
5' ss Seq
CAAGTATGG
5' ss Score
4.99
3' ss Seq
GAGCATTTTGCGTGTTCCAGAAA
3' ss Score
5.74
Exon sequences
Seq C1 exon
GAAGATGGGAGTGGCAAGCTTGGCCTGAAGGAGTTCTACATCCTCTGGACGAAGATTCAGAAATACCAA
Seq A exon
GTATGGCCCTGGGCACCCTGGGGCGGGTAGATCAGTGTTGGGGGGACATTCTGGCATATGTGTTAAGATGTAACTGTTGTGGAGGGTAGGGGCACATTTCCAGGGGAATTGAACTCTATCAAGTCCTTGTATGCAAGGACTTAGCAAGTGACATAGCCTTGTCCTTTCCTATGCCTGATAAGTGACCAGAAATGAGGTCACTGTCAAGAGTTTCCAGAGAAGGCTGAGGGGAAGCCCTTCAAGCCCACTCAGCACACACCTCACAGGCGTCTTGACACTGTTTTGCTTGGGTCACGGTTCTAATGAGCATTTTGCGTGTTCCAG
Seq C2 exon
AAAATCTACCGGGAAATCGATGTGGACAGGTCTGGAACCATGAATTCCTACGAGATGCGGAAAGCACTGGAAGAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026509-Capn2:NM_009794:17
Average complexity
IR-S
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:
PF138331=EF-hand_8=PD(29.5=78.3),PF134991=EF-hand_7=PU(2.4=8.7)
A:
NO
C2:
PF134991=EF-hand_7=FE(30.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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: