MmuINT0028824 @ mm9
Intron Retention
Gene
ENSMUSG00000038599 | Capn8
Description
calpain 8 [Source:MGI Symbol;Acc:MGI:2181366]
Coordinates
chr1:184528793-184529756:+
Coord C1 exon
chr1:184528793-184528961
Coord A exon
chr1:184528962-184529672
Coord C2 exon
chr1:184529673-184529756
Length
711 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGC
5' ss Score
6.16
3' ss Seq
GAACTTTCTTCTTGACACAGGTC
3' ss Score
7.36
Exon sequences
Seq C1 exon
GCTCAATGGTTCGTATGAGGCTCTTGCTGGAGGCTCCACAATTGAGGGGTTTGAGGATTTCACGGGTGGCATCTCTGAGTTTTATGACTTGAGGAAGCCTCCGGGCAATCTGTACTACACCATCCAGAAGGCCCTGCGCAAAGGCTCTCTGCTGGGCTGCTCCATTGAT
Seq A exon
GTAAGCCTCAACTCTTTGTCTCTTTTCTCTGATGACATATTGGTTTACAATGTACAGGAAATGGTGAATCCTGGTGAGTGGGTGGGAACTAGGGTTGGTCACATTTTAAGATTATCATTGGCTGGTCACTGTTGGAGCTGCTTTAGCATGGCTAGACTCATCACAGGAGCACAGCCCAGACCCCTGGATCCTAGGCCCCATCTACTTACAGTCTTTTTGCTAAGCCATCTCAGTCTTTGGGAAAACAAACATGGCAGTTGACAATATTTGATGAACTTGGAGACCCCTGAATGGAAGTAGAAGATCCAGCTCTGACAGGAAGGTTGGCTCTTTGGAATGCCAATGTGGTCTTAGAAATCAGATCTGGAAGCCACTAACCTGAGGGCTGGTTGTTTTCTCTCTGGTCATGTGCTCTCTTTTCCTGTGTGGGTGTCATCATGGGTAGGTTTGTTTGTTTGTTTGTTTGTTTGTTTGTAGGCAGCATAACTATGATCTTTCACACCACAACCTCAGCAGCCCCTCAGTGCTTGACTGGCTTATTAAAATGGGTTTTCTAGAAATGGGTCCCTCTGCTCATGGGTCATGGCCAACCTTACACTATTCCCACCGGAGAGGTCCTTAGCTGTGTTCTATACTGTTAGAAAGCATTGTAGTGCTGACCCCAAAGAGGTCAGGGTCAGCCTTACTGCTTGAACTTTCTTCTTGACACAG
Seq C2 exon
GTCTCAAACGCAGCCGAAGCAGAAGCCACCACCAGGCAAAAGCTGGTTAAGGGCCACGCATACTCTGTGACTGGAGTCGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038599-Capn8:NM_001145806:5
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:
PF0064816=Peptidase_C2=FE(18.7=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(9.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGTTCGTATGAGGCTCTTGC
R:
TCTTCGACTCCAGTCACAGAGT
Band lengths:
246-957
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
Other AS DBs: