MmuINT0050319 @ mm9
Intron Retention
Gene
ENSMUSG00000030409 | Dmpk
Description
dystrophia myotonica-protein kinase [Source:MGI Symbol;Acc:MGI:94906]
Coordinates
chr7:19677288-19679169:+
Coord C1 exon
chr7:19677288-19677385
Coord A exon
chr7:19677386-19678298
Coord C2 exon
chr7:19678299-19679169
Length
913 bp
Sequences
Splice sites
5' ss Seq
CAGGCGAGT
5' ss Score
2.92
3' ss Seq
TCCAACCTTCTCTCCTGCAGATC
3' ss Score
12.3
Exon sequences
Seq C1 exon
CCAACTACAGGAGGCCGAGGTCCGAAACCGAGACCTGGAGGCGCATGTTCGGCAGCTACAGGAACGGATGGAGATGCTGCAGGCCCCAGGAGCCGCAG
Seq A exon
GCGAGTCCCTCACCTGCTTCCAGCCAAGGGGGCACTGGGTGGAGATGGGGGGCATGTTGGGTGTGTGAACCCTCGGGGCAGGGGAGGAGTCCAGGCTGGGGCACCGCAGCCGCGCCACTGCCTTTCTCCTCCATCCTCCACACTCCATACACCTCTCTCTTCTCCTTCCAGCCATCACGGGGGTCCCCAGTCCCCGGGCCACGGATCCACCTTCCCATGTAAGACCCCTCTCTCCCCTCCCCGATCCCCATCTTAGATATGCTACCCACAGCCCTTCTCCCGTCCACGTTTAGGGTCCATTCTCCTTGGGGGTTCCAGAAGAAAGCTGCCCTTCACTCATCCATTCAGCATGCACTATCTACCAGCTCTCCCTCGTTTCAGGCTTCTCGCCAAATCCTCCCCAAGGGAACTCCCTATACTCCCGTTCTGGCCTCGACTAGATTCCCGCACTGCCTCTCGCCCTGCTGCTGGGCTCCGATCGGGTCACCTGTCCCTTCTCTCTCCAGCTAGATGGCCCCCCGGCCGTGGCTGTGGGCCAGTGCCCGCTGGTGGGGCCAGGCCCCATGCACCGCCGTCACCTGCTGCTCCCTGCCAGGGTATGTCCCACGTCCGCCCACCACGGGCCTCTGCCTAGCTCTGCCCACTGAGTGTCACCACTGCTTGCTGTGCCTCTGTGGAGCTCGGCCCACCGCAGGGAGGGGGGGTATTCGGGCGGCCAATCAACACAGGCTGCTGCTAAGTAGCCAATGACGAGTTCCAACAGGAGCTCTTTCTTGCGAGCAGACCAACTTTAGCTGCGGGCTGTGGGGACCAGAGATGCGCTCAGAGGCCCATCTATGGGTATAGGCTGGGCGGCTCCCAGGAGCCAGTGGGCCCCTGTAGCCTAGTGCTAATCCAACCTTCTCTCCTGCAG
Seq C2 exon
ATCCCTAGGCCTGGCCTATCCGAGGCGCGTTGCCTGCTCCTGTTCGCCGCTGCTCTGGCTGCTGCCGCCACACTGGGCTGCACTGGGTTGGTGGCCTATACCGGCGGTCTCACCCCAGTCTGGTGTTTCCCGGGAGCCACCTTCGCCCCCTGAACCCTAAGACTCCAAGCCATCTTTCATTTAGGCCTCCTAGGAAGGTCGAGCGACCAGGGAGCGACCCAAAGCGTCTCTGTGCCCATCGCGCCCCCCCCCCCCCCCCACCGCTCCGCTCCACACTTCTGTGAGCCTGGGTCCCCACCCAGCTCCGCTCCTGTGATCCAGGCCTGCCACCTGGCGGCCGGGGAGGGAGGAACAGGGCTCGTGCCCAGCACCCCTGGTTCCTGCAGAGCTGGTAGCCACCGCTGCTGCAGCAGCTGGGCATTCGCCGACCTTGCTTTACTCAGCCCCGACGTGGATGGGCAAACTGCTCAGCTCATCCGATTTCACTTTTTCACTCTCCCAGCCATCAGTTACAAGCCATAAGCATGAGCCCCCTATTTCCAGGGACATCCCATTCCCATAGTGATGGATCAGCAAGACCTCTGCCAGCACACACGGAGTCTTTGGCTTCGGACAGCCTCACTCCTGGGGGTTGCTGCAACTCCTTCCCCGTGTACACGTCTGCACTCTAACAACGGAGCCACAGCTGCACTCCCCCCTCCCCCAAAGCAGTGTGGGTATTTATTGATCTTGTTATCTGACTCACTGACAGACTCCGGGACCCACGTTTTAGATGCATTGAGACTCGACATTCCTCGGTATTTATTGTCTGTCCCCACCTACGACCTCCACTCCCGACCCTTGCGAATAAAATACTTCTGGTCTGCCCTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030409-Dmpk:NM_001190491:12
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.897 A=NA C2=0.013
Domain overlap (PFAM):
C1:
PF104814=CENP-F_N=PD(19.6=55.9),PF041569=IncA=FE(26.4=100),PF0003816=Filament=PD(41.6=94.1),PF088265=DMPK_coil=PD(47.5=85.3),PF139491=ALIX_LYPXL_bnd=FE(34.7=100)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGTTCGGCAGCTACAGGAAC
R:
GACCCAGGCTCACAGAAGTGT
Band lengths:
347-1260
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: