MmuINT0028835 @ mm10
Intron Retention
Gene
ENSMUSG00000038599 | Capn8
Description
calpain 8 [Source:MGI Symbol;Acc:MGI:2181366]
Coordinates
chr1:182623919-182627604:+
Coord C1 exon
chr1:182623919-182623983
Coord A exon
chr1:182623984-182627535
Coord C2 exon
chr1:182627536-182627604
Length
3552 bp
Sequences
Splice sites
5' ss Seq
GATGTATCC
5' ss Score
1.64
3' ss Seq
TTAACCTTTAACAAACTTAGGGT
3' ss Score
5.93
Exon sequences
Seq C1 exon
GAACAGACATGAAATTTGACGGATTCAACATCAACACTTGCAGAGAAATGATCAGCCTGCTGGAT
Seq A exon
GTATCCTTTAAATGTCACATCTTTTTTTTTTCCCTGTCTTAAAGGCTCCTCTACCTTTTTCCAGGAAGGAGGGGGGAAGCACAGGGGAGGAAATGAGAAAGGAAACTCATTTACTGAGCATACGTCAGGAACCCTGTTTGAGTTTTTAAGTTAAAATGCACCCTTGTGTGTTCTGTGGTTGTCTTTGCCACACCTGGGACTATCTCCCATTTATCCACCACCACCACAAACAACAACAACAACAACCACAAGTTATTCTACACTTGAGTGCCTGGTCTAAAATTATGGAACTTGGAGATAGCAAGTGGGACTGTGCCCTCCTTCGTCCTCCACACTATGTTGTGTGTCTCAGCCTGCTAAATCCATTCTACTCCCCATCTGCATCCAGCCCTTCCTCAGCTCCCCCCATCACTGTATGGTTTTCGTTCAGACACTTAGTATGGTCCTTGGATATCCACTACCGATAGCTTAGGATTATGATACAAGATAAAACCTATTTGTTCTCTCTGATCTGATTTAACTCTCATCTCCTTTTAAAGAACAGTCTTTTCAGAGTCTGCCAGAATAGTGTTACACAAGACCTTAAACTGTGTAGCTTATAGATAGCAGACATTTCTTACAGTTCAGGTGCTGGGAAGCCTTGGACTAAGGTGTACAGACAAGTTCGGTAAGGGCTCTCGTCTCCGGGTTTTGGCTGTAACTGCACAAGGTGAGGGGGGGTTTGGGGGGATTTCCCTGGGATTCCCTTTTATAACAGCACAGCTGCATTTACACAGGGGCCCTCTTTGTGACCCCCATTTCCTGATTCCCTCATACTGGAGCTAGATTTCAACACTCAGATTTGGGAGACACAAACACTCAATCTATTATACACAGGTGGGGGGTTTTCTGATGAGTGGCAAGGGCAGTCTCCATGTCACAGACATTCTACAGAAGGTGCAGGGTACTGATGGCCCATCAGCACTTCCTCCAGCTTTGCTGGGACAGAAAGGAAACAGGAAATATGCCTCCTTTCTCATTTCCTCCCTTGTGCTCCCTCCTTCCTGGAAAAAGGTACAGGAGTCTTTAAAGCAGAAGAAAAAAAAGTGACACTTAAGGGATACATCCAGGTAACCATTCTCCATATACTGGTGGTGAAAGTGAATCCTTTAGGCTAGGGAGGCCTCATTCACTATGGGATCTGGCAACCTTACTGCAGGACCCCTTCATCAGCTCCAAGAAAGTCAGTAAGTGTGACCGTCTTTTGCACACGGCAGGGCTTGTGCAGAGAGTTGTGGTAGTGAGTGTGTGTGGAGTGTGTCAGTCTCTGCACAAGTTATCAGTGATGGATAGGTGGGGCTGTCTAGTGATCCCAGGGCTCCAAGTGCCCACTAGTTGCATCGTGCTGGAACCTTTCTGCCCTTGTGTCTTTCCACGGCTGTGCGGTTAGCAGTTCAACCTGTGGTCACAGACGACTAACTTGGCTCCACTCTGCTGAGGCTAGAGCTTTGGTTCCAGAGTCACTCTCATCAAAGCTCTCTATTGATTTCAGTTCAGCCTCAGATTTTGTCGTAGTTACCCACCATTTGTCCTAGTGATGCCGGGTCTCCTGCGGCTGCGAAGGATGCCAACTTGATGACTCTGCCTTCTTTTGGACTCTTTGCTCCAGTGTGAGGTAGTGCTTAAATCTCCCTGCGCAGTGAAAATGCCCTTGCAGATTTAGAAAAATGTCAAGGCTATTAAGATGTAGTTCATATGTCAAAAATATGCTTAGTCGGGATGTACAGTTCATTCCATGGCTTCTGTTAGGTTTGGAGCTGGGTAGCCATTTCCACATGGCCAAGAACGTTTTTCTCATGCACCCTAGATCCTGCCCTTATACTAGCAGTCACTCTTTATTCTCCTGACCCCCCAATTCCATGGCAGCCGAGGCCATATTGTCTACCTATGTGAATCTGCCCACTGTGGACATCTGTATCTGTGGAATCAACCCCACACTAAGTGGTGCTGCCATTAGAGTGATGTTTACATATTAGAGCATCCCCTCACCCATGGGAACCGGAAAGTCCCAGTGCTTACACTTCAGTGCTGGAGACCCTGACTCAATCAGGTTTACCTGGACTTTGGAACAAGCAAAGGTTCACATCCTGTATTTATTACTTCTCAGGTATGTAAATTAAGAGAAGTGACTAAGTGCTTGGACTGTCAGGGTCTTTCCCTAGAGAACGGGGTAAGAATGTCTAGTTTGTGCGGCCATTGTGGAGGTAATATGAGATGCAAGAGTAGAAAGACACTCAGGGTGGAATCCCCCTGAGCCCAGCACTCTTCAGAGACTGGTTGTCTGGGTGGTAGTAAGGGAGTGAGCTGTGCTCCAGTCAGCATTTAGCACTCTGAGGAGACTGGCTTTGTTACAGGAAGGGACTGAGCTGTGATCTGGCCAGCATCCAGCACTAATCAGAGATACAGCCTGAGACTGGATGCTCTGAAAGGATGAGGATGTTGGTCAGCCTCCCATGATGTTAACTGAATACCTGAGAGGATGCACTAGTAGTGGAAAGGTATTTTTGGGGGCTCATGATTTTGGCTGCTTTGACCTATGATAAGGCAACACACAGTTATGGGAATGAGAAGAACTTTCCTCATAGCGTCTGGGGAGAGAAAGAGAGAGAGAGAGAGACAGACAGACAGAGACAGAGAGACAGAGACAGAGAGAGACACAGAGAGAGAGACAGAGAGAAAGGGGCAGGTTCCAACATAATTTTCAGGGTCCAATGACCTATCTTGTCCAAGTTCCACCACCTCCCCAGGCCATGCTTTGCCATGTGGGCCTTTGGCAGGGACCACAGTACCAGACACGAGCCAGGAACTTTACAGTCTTGGGTGCAAAGTAGACTTCCATTTGGCTATCTAAAGTATATGGGGAGGAGTTTCTGTTCCAAAACACAGTGGTGTTTGTAGATTTATTGTGATTGGTGAGAAAAAAGAGTGAAATTCACGAGGGTAAGGACAGTGGACAACCAAAGCCCCATGCGTAGCTCGGCACTCAGTGAGTACTCACGAAGGGAGATAAGTTGGATATGGGAAATTCCACACGGCCTCCTGCCCCCAGCACACATCCCTCTTATGGTTTTATTAGAGCCTTTGAGGACTTGTGTTTGTAATATCTGGGTTTCTGTTGTTGTTTTGTTTTGTTTTGTTGTTCTTGTTGATATTCTGACAATACTATAATGATTTGAATGAGCAGTTGCCCCAATCGCAGAAATCTGAGTCTGATATTAACACACAGCTGCAACTGCTGTCACTTAGGATAGCGAGGGTGTGGCCAATCAGTGCTGTTGTAGGAGGCTTTAAGCTCATGTGGGTCTTTGTTCCTACCTCTGCACCTGGCCCCTGTAGTGAGTACTGAACCTTTTAATCTTAAACTTGAGTTTGCTTCCCACCATCACCCCATCGCATGGCTTGCTGCAAACATGGAAGGTTTACCAAGGGTTCAAGGCACCGATGCCGGCTCACAAGAGAGAGGAACTCAGTAATGACTCAGAGCTTGTCCATATTAACCTTTAACAAACTTAG
Seq C2 exon
GGTGATGGGACAGGAAGCCTGCGACCGGTGGAGTTCAAGACTCTCTGGCTGAAGATCTGCAAGTATCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038599:ENSMUST00000048941:16
Average complexity
IR
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:
NO
A:
NA
C2:
PF0229611=Alpha_adaptin_C=PU(20.2=82.6),PF134991=EF-hand_7=PU(2.2=8.7)
Main Inclusion Isoform:
NA
Other Inclusion 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
- 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