MmuINT0028827 @ mm9
Intron Retention
Gene
ENSMUSG00000038599 | Capn8
Description
calpain 8 [Source:MGI Symbol;Acc:MGI:2181366]
Coordinates
chr1:184533778-184534731:+
Coord C1 exon
chr1:184533778-184533852
Coord A exon
chr1:184533853-184534570
Coord C2 exon
chr1:184534571-184534731
Length
718 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
CTGGTTACTTTGTTCTTCAGGAT
3' ss Score
8.73
Exon sequences
Seq C1 exon
TGCACCTGAGTGGAATTACATAGATCCACAGAAGAAGGGAGAACTGGACAAGAGAGCAGAAGATGGGGAGTTCTG
Seq A exon
GTAAGAAGCTGCGCCGAGGGCCCTGTGGCCGGTCTGTTCCAAAGTATACGGGGGGGGGGGGGGGCACAGTCTCTAGGACTTGCAGGAATGTGACAATGTCCCGAGCACAGGGGCTTTGGTTTCCCCCTTCCCCTTCCTCTGGTATAATTCTACCTCCATTCTCAACTCTAAAGCATTGGAACTCAGCTCTCTGCCCACAACATGGCTTGGCCTGCAGCCTGTCTGCCTGTTGCGAGCCTAAAACAAATCCCCCACCCCACCAATTCTAAGGCCTAGCATCTAGTCAAAACAGGATTCTTTCCTCTCCTTGGGTAGGGGACTAAGGGGTGGGGATCCCTTGGAAGATGGAATGTCTTAGAGGAAATCTCCACACTGTATATCATGGAGAATTCCTCAGAAATGAGCCTTTGTCGGGCTTAGCTGTGATCCAGCCTAGAGGTGAGGGCTATGTTCACATCCCCGCTTCCAGGAGGAGGGAGGGTTCCTCTGGTTCATGGTTCCGATTCTGTGTGGCTGGAGGGGGAGATTCTCTAGGAATTGAGACTCTGACCACAACAACAAATCTGGATGGTAGCTCTGCTTGTTTGTGTGACTGGGCTATAGAAGGAAACTCAGGCAGCCCACAGTTTCTGGAAGACAGAGCTCTTTGCTGGGCCTTTAATCTCTCTTCCAGTCCAGCCTGCTTCACTCACTCCCTTCTGGTTACTTTGTTCTTCAG
Seq C2 exon
GATGTCCTTTTCGGATTTCTTGAAGCAGTTCTCCCGACTAGAGATATGCAACCTGTCCCCAGACTCTCTGAGCAGTGAGGAGATACACAAATGGAACCTGGTACTCTTCAACGGCCGCTGGACACGGGGTTCTACAGCCGGGGGCTGCCAGAACTACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038599-Capn8:NM_001145806:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.096 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(8.3=100)
A:
NA
C2:
PF0064816=Peptidase_C2=PD(6.3=34.5),PF0106717=Calpain_III=PU(15.2=43.6)
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:
TGCACCTGAGTGGAATTACAT
R:
CTGGGTAGTTCTGGCAGCCC
Band lengths:
236-954
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: