MmuINT0028845 @ mm10
Intron Retention
Gene
ENSMUSG00000031981 | Capn9
Description
calpain 9 [Source:MGI Symbol;Acc:MGI:1920897]
Coordinates
chr8:124609093-124611560:+
Coord C1 exon
chr8:124609093-124609173
Coord A exon
chr8:124609174-124611502
Coord C2 exon
chr8:124611503-124611560
Length
2329 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGA
5' ss Score
8.24
3' ss Seq
CACTTGTCTCCACTCCACAGGAC
3' ss Score
9.47
Exon sequences
Seq C1 exon
CTTCCAAAGCCGACTCCACAGGAGGAGGAAACAGAAGAGGAACAGCAGTTCCGGGCCCTGTTCCAGCGAGTTGCTGGCGAG
Seq A exon
GTAGGATGCAGCCGCCTCGGTCTCCTCTCTCCTCGGACCTCTACCCTTGCCCTGAGGGCCTGCTCAGGGTTCCCAGCAGAGGATAGTGATCATGAACTACAGCACCTTCCCAAGTCCTAGTGGGCTTGTTGTAAAGCCAGCTCTGTTGTCCCTGGGAGCCTGAGCACCAGCTTGCTGACAAGTGTCAATCAATTTTTAGGGGTGGGACTAAGGTTAGGGCTAGGGTTTCTCAGATGAGCTCAGAACTGACCCAAAGATACTTACTGTAGATCAGAAAGCCTTAAAGGGGGCAGTGACTGTGGACTCTGCCCCAAGTCACAGCCAAAAAATGCTCTACTACATTAAAATGCTTCTCAGGGAGGCACTATGAGGACACCCCCAAAGGGAGTTTCAGGGAGCAACACACTTTCGGCCATTAGCATCAGCCATTAGTGTTTGATTGGCAGACCAGGGCCCCTGGGAAAAGACAGAGCACCTGTCCATTTGCCATCCTTGATCTTCCATCCCATTTCCAGCTCTGCTCAGCATCCTTACGAGCTGCCCTGGAAGAGCTGGGGAACTGGGTGAAATGTCACCTAGCTCCAGGCCTCATGCCACCGAAGGCTATTTCCTCAGTGGAGACCTTAATAGAAGGAGCCTGATGGATTAGCTTGCGTCAGACACTAATGACTTTATTACATTGCTCCCTTCTCCTGTCTGGGGCTCCTGGATTGGAAGGGGCAGCCCAGAGAGGTGAGCACACACTCCGAGGCCTTGCATATACTGCTGTAAACAAGGGGAGCAGGGCACTCTGGTGGAGTGACAGAGCCATGTGCCATCTGTCTCCAGATCTGGGCAGAGGATGACAGGGAATGGGGGTTGGGGGAGTCCCATAGTCAAGTGATCTCCCCAAGGATTTCAGGGGTGATGGGCTGGTCCCACATCATAGTGCCTGTGAACCCTTGAACAGAGGCATAATGCAGAGACAGAAGTTACTGGGGGAGAGATGCAGCATTCGTCATTAGCAACAACTAACAAAAGCGCCTCCCCCCCAGTGACGTTCTACCTGCTGATCCTGTCCTGTTCTCTACCCAACTGGGTAGCTGGCTCTATAGCTCCATGCCTATTCCCCCTGGTCAGGGTGGCCATGTACTATACAATTTACCTGCTTAGCAGAGTTGAACATCTCAAAGACCCACTCCCTGGGCCTGGAAGCTTCAGCAGTAGAGCCAACTGTCATATGTTGTAGCAATGTCAACTGTGACCATGGTTACATGGGTTAGTTCAACCCCCACATGTGCGGAGGAGCTAGCCAGACCTCCTTGTGCATAAAAACCACTTAGGTAGCTGGGTGTGGTGACTCATGCCTCTTACCAGGGAAGCTGAGACAGGAAGATTTGCAGTGAATTTCAGGCTACCCTGGGCTACAGAGTGAGAGCTGGTCTTAAAAAAACTAAAAAAGGCAAGATGGCTCAGTGAGTATAGGTGCTTGCTATGAAAGTCTGGTGACATCCATTTGATCCTCAGAACCCAGGTAAAGGTGGAGGAGAAAACCGACTGCACAATGCTGTCCTCTGACCTACATGCACAGGGGCACACACACCACACATACACAAACCACAAACCACACATACACACCACACATACACAAACCACACCCATACCATACACACAACCACACACACCACACGTATACCATACACATATACAAACACACACAAACACACACACCATAAACATACACTCCATAAACACACAAACCACACATACCATAAACACACACACACACACACACACACACTGAGCATCCTACAACTGTGGGCTCCCTCCATGGCCCTGGTAAGACCTGAGTATATCTCTCACCAGCTTTTGCTTTGTGGACGCTGGGGTTGGTGAGTATCTGACCCTGATGATTCCTGAATTCACCTCTAGAGATTTTAAATTAATCATGTCATGGTTAGGTCATGGTTAACCGTGTCTTAGGTCTTCTGTCTTGAATAGCAGGTGACACCCCACTATGTGAAGTAATTTCAGTTCTCTGGGTGCTCCTGTAGAGACGTACAAGGACCTATTTGCTCTCCAAAGGTCTTCTGACTCTTTAATGTCTCTCACAGCTTTTTGAAGCATTCTCGGGGACTATTGCATCCTTACAGGATGGCTGGCTTGCCTTCCCCTTTCCTGAGTCTCTCCTGGGGTGGTCGGCCCTTCCCTGAGAAACCAATGGGTGCAGCTACCAAGGAGGTGGACTCCGCTCCCAGCACAGCAGCCCCAGGGCCACTCTCCCCCCAGGAGCCAAGTGAAGTTTAGAATTGTCGGGGGACCAAAAAGAGCACTTGTCTCCACTCCACAG
Seq C2 exon
GACATGGAGGTGTCAGCTGAGGAGCTTGAATATGTTCTAAATGCTGTTCTGCAGAAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031981:ENSMUST00000093033:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.519 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF138331=EF-hand_8=PU(0.1=0.0)
A:
NA
C2:
PF138331=EF-hand_8=FE(31.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
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
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types