MmuINT0053481 @ mm9
Intron Retention
Gene
ENSMUSG00000044393 | Dsg2
Description
desmoglein 2 [Source:MGI Symbol;Acc:MGI:1196466]
Coordinates
chr18:20741209-20741623:+
Coord C1 exon
chr18:20741209-20741346
Coord A exon
chr18:20741347-20741437
Coord C2 exon
chr18:20741438-20741623
Length
91 bp
Sequences
Splice sites
5' ss Seq
ATGGTAACT
5' ss Score
6.06
3' ss Seq
GCTGTGTTTGTGTTCTTTAGTAT
3' ss Score
7.54
Exon sequences
Seq C1 exon
GAACACAGCAGCTATTCCTTGACGGTGGAAGCAAGAGATGGTAACGGGCAGATAACAGACAAGCCAGTCCAGCAAGCTCAAGTTCAGATCCGTATATTGGATGTCAATGACAATATACCTGTGGTAGAAAACAAAATG
Seq A exon
GTAACTCAGTTTTATAGTAGACTTACTATTTCCTGAATCACAACTAAAATTACATTATTGCATTAATAAAAGCTGTGTTTGTGTTCTTTAG
Seq C2 exon
TATGAGGGGACAGTGGAAGAAAACCAGGTCAATGTAGAAGTCATGCGGATCAAAGTGACCGATGCAGATGAAGTGGGCTCTGATAACTGGCTAGCAAACTTTACATTTGCATCAGGAAATGAAGGGGGCTATTTCCACATTGAGACTGACACACAGACTAATGAAGGGATTGTGACCCTTGTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000044393-Dsg2:NM_007883:7
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.396 A=NA C2=0.072
Domain overlap (PFAM):
C1:
PF0002812=Cadherin=PD(32.0=69.6)
A:
NA
C2:
PF0002812=Cadherin=PU(58.7=98.4)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACGGTGGAAGCAAGAGATGG
R:
CGGTCACTTTGATCCGCATGA
Band lengths:
179-270
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: