MmuINT0028850 @ mm9
Intron Retention
Gene
ENSMUSG00000031981 | Capn9
Description
calpain 9 [Source:MGI Symbol;Acc:MGI:1920897]
Coordinates
chr8:127140053-127141391:+
Coord C1 exon
chr8:127140053-127140169
Coord A exon
chr8:127140170-127141332
Coord C2 exon
chr8:127141333-127141391
Length
1163 bp
Sequences
Splice sites
5' ss Seq
GCCGTGAGT
5' ss Score
8.56
3' ss Seq
CGCTGCCTCCCTCCCAACAGGGG
3' ss Score
11.37
Exon sequences
Seq C1 exon
GCTTTCAGCTGGGTGGCCATCTCCTGCAGCTGATTGTCCTCAGGTATGCAGATGAGGACCTCCAGCTGGATTTCGATGACTACCTCAACTGCCTGGTGCGGCTGGAGAATGCAAGCC
Seq A exon
GTGAGTACGCATGGGACCCCTGAGTGTACAGGCGAGCTGAGAGTGTGCAGGGGAGCCCTGAGTGTGCATGTGAGTCCTGAGTGTACAAGGGAGCCCTGAGTGTACAGGGAGCCAAGAGAGTCCTTGGACCCTTGGGAGCACAGAGTGCCCAGCTCAGGGTCTCCAGTCACCATCTATGAATACATAAGAAACAACCTGGGGGGAAAAAGGCAGATCTAGGACATGGAGGGCCACCGTGGATGTCTGTGCAGACACTATGCCCTGTGGTCAGCTGAGAGACAGAATAAGGTCCTGTGGTTACACACCTACAGGCTGTGAAGGGCTGTGAGTGGACAGGTTTCACACCTCCTACTGAGGAAAAGTCAAGTCCCCTCACAAAACCCAAAATGAGAAGTCTCTGCCCCTCGCTTGTTCTCCCCTGAAAGCCCCAGACACAGACCCAGTCGTTTAAGCAGGGTCTGCTGTACAGGAAAGATGGAAGGCTTGTGTGCAGGTGCTCTACACAGGAGATTCATGGACACACTCTCTCCCAAAATAGCCCCCAAGGGTGGCCAAATGCATCCAGGGCAGCTCAGCCATCCATTGTCCCTTCAGCTGCAAACGAACATGTCCCAGTATCTTGTGGTTTTATAATGCACATGCATTTTACACACCTGCACAGCCATGGGATGCCCAGTACACACCTAGAAATTTTACACACCTGCACAGCCATGGAATGCCCAGTTCATAGTGAAGTGTCCCCAGTGGGATGACAGGATGTTGTCACTATTGCTTGGGGCACTTAGCATCCAAGCAGGTCCATGCTACATTCATATTCTCTCTTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCGCTCTCGCTCTCGCTCTCGCTCTCGCTCTCGCTCTCGCTCTGGGAAAGCCCCTCCTCCACCTTGCTAATCAAGGTTTGGCTGTATCTCTTCTGGAGGTAGGAATCTGAGGTTCAAATTAGACAGTCCCTTCTCAGATCACCCTGGCTAGGAATTGAATCCTTTCGATCGTCTCCACCCCACCATGCAGGGAATCTGATCTCCACTAGAGGGAGCAGCTACCCACAGATTTCCCAGTGGTCCAGGAGCCCTTAAACCTGCCCAGGGGTCTGGCTCTACTGTGACGCTGCCTCCCTCCCAACAG
Seq C2 exon
GGGTGTTCCAATCTCTCAGTGTGAAGAACAAGGACTTCATCCATCTCAACATAAACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031981-Capn9:NM_023709:18
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:
PF134051=EF-hand_6=PD(14.3=12.5)
A:
NA
C2:
NO
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: