MmuINT0053495 @ mm9
Intron Retention
Gene
ENSMUSG00000056632 | Dsg3
Description
desmoglein 3 [Source:MGI Symbol;Acc:MGI:99499]
Coordinates
chr18:20682093-20683188:+
Coord C1 exon
chr18:20682093-20682259
Coord A exon
chr18:20682260-20683059
Coord C2 exon
chr18:20683060-20683188
Length
800 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAA
5' ss Score
7.3
3' ss Seq
CTTTTTTTCTCTAAACTTAGCAA
3' ss Score
5.21
Exon sequences
Seq C1 exon
ATTCCCTGGTAATGATCCTAAATGCCACGGATGCAGATGAACCAAACCATATGAACTCTAAAATTGCCTTCAAAATTGTCTCCCAGGAGCCCGCAGGCATGTCCATGTTCCTCATCAGCAGAAACACCGGAGAAGTCCGCACTTTGACCAGTTCTCTTGATCGAGAG
Seq A exon
GTAAAACAAGCTGCTAGAAAGCATAAAAAAACCTAAAGCAACCCGTAAGAGAGGGATGCCTCCATCTTGACTGGGAATACAAACAGAAGTGGGGAAGGCTACTAGCTCTTCTCTGAGACACTCTAGGGGAAATTGCCTCCAGGGTTGACTCTGTTGTGGTAGGATGTGTTCTTGTGACAGCAACCTGTCACACAACAGCTCAAATGGGAAAATTAAGAACACTGGTGTGCAGAAGCAAAGACTGCACTGTGATTAATTCCTAAAGACTGGGAGAGAATTCTTAGTTGAAGAGGTTTCTATTTGTCATAAAACTTCGGTTGGCATACCTTTCCTCAGGATTTCTCCATTTAATTTTACCTCTGCTTACAAAACATCAAAGAATCCCTTCCTGTCTCCTCTCATCATCTCCCCCACCACCGTGTATCTCCACCACAACGGGCTACTCAGATCCATTACTTCCACACAATATTTTTCTAATTGACTGGTAGGGAAACTCCACATGTGAGCTTCTCTCAGACAATCACATCCCCCTGCATCACTGTAGCCCTCCCCCTTTTTGCCTCTGAGTCCACAACACTACCTTCAGAAGTTTACTAAAGAGGAAGTCTCTTGTAGTGCTTACCACTTCCACCCAGTCGTCTCAAGCCCCACCAGTCTATCCCTGCCATGGACAACTAACAGTGTGTGAGAGCTATGATTCACGAACTTAAATATTTTCACTATCTTATCCAACAAAAGCTACTATTGGACATTCATAATCTTTGACAATTAACTTTTGTTCTTTTTTTCTCTAAACTTAG
Seq C2 exon
CAAATTAGTAGCTACCATCTGGTTGTGAGCGGTGCAGACAACGATGGAACAGGACTGTCAACTCAGTGTGAATGTAGTATTAAAATTAAAGATGTCAATGACAACTTCCCAGTGCTCAGAGAGTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000056632-Dsg3:NM_030596:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.036 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0002812=Cadherin=FE(56.7=100)
A:
NA
C2:
PF0002812=Cadherin=PD(29.9=67.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCCCTGGTAATGATCCTAAATGCC
R:
TGAGACTCTCTGAGCACTGGG
Band lengths:
294-1094
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: