MmuINT0053473 @ mm9
Intron Retention
Gene
ENSMUSG00000044393 | Dsg2
Description
desmoglein 2 [Source:MGI Symbol;Acc:MGI:1196466]
Coordinates
chr18:20752565-20754582:+
Coord C1 exon
chr18:20752565-20752792
Coord A exon
chr18:20752793-20754460
Coord C2 exon
chr18:20754461-20754582
Length
1668 bp
Sequences
Splice sites
5' ss Seq
TCCGTAAGT
5' ss Score
10.27
3' ss Seq
CTCCTCTTTGCTGTGTACAGTGG
3' ss Score
6.15
Exon sequences
Seq C1 exon
GTACCAGTGTGCTGCTGCAGCAGAGCGAGCGGAAACGCGGGAGAAGTGAGATTCCCTTCCTCATTTCCGACAGCCAGGGCTTCAGCTGCCCCGAAAGGCAGGTCCTTCAGCTCACTGTATGCGAGTGTCTGAAGGGCGGTGGCTGTGTGGCTGCACAGTATGACAACTACGTCGGGTTGGGCCCTGCCGCCATCGCTCTCATGATTCTAGCACTCCTGCTCCTGCTCC
Seq A exon
GTAAGTCTTCAGAGCCTGTGTTCCTAGTGCCTTGATCGGTGTCAATAGGTCTTCAGAAAGGACTTGCCACACTCATGTGCCGTGTAGATAGAAGGTTATTTTTTCATAAACAGTTTATTCCAATCCAAGTGTGCTTTGCACTCTTCTCCGCCCCCACTCTTGGCTGCTCGCCTTACCTCTGGCCAGCACTTGCGGCAGTCAACCCTTTCCAAAGCACCGCAATGTGCCCTCACAATGACAAGCTGTGCCCAGCCAGTTCTGTCTGCCCTCCTTTATTTCTACCAAAGACCTGGCATCCCCTGCAGTTGCACTGGGCACTTGGGCAGAGTACCACCTCCAAGACCGCCTTGGCCGTCTCCATGGAAAGAGGAGAAGCCTATTAAAGATATTTATAGATGTCTAGTTAAGTGCACAGAACCCAACAGTTTACAATGGACCTCTAGCCCGTCAGCTCTGTTTGGTTGTGACTGACGTGTCTTACTTATAGTGGAGACGGGTATGCATTTTTTTATCCAGGGATTTCACTCCCTGTCTTCCCATCCCGGCTTCTCTAAAGTCTGACCTGACACTCAGCCCATGACACTTGATTACTGTTGATTTTTAACAACAGTACTTAGGAGCTGGGTGTGTGGCTCCGTTGGTAGAGTGCTTATGTGGCATGCCTGGGTCCAACCTTCAAATTATATAAAACTAGATATAATGGTACAGCTCATTTGTGACCCCAGAACTCCAGAAGTGAGAGGAGAAGGGTCTGGAGTTTAGGATCTTTCTCAGTTACATACCGAATTCAAGGCCAGCCTGGGCTATATAATACCCTATCTAATTAATTAATTAATAGGTAAATAAATAAATGTAAGCAAAAAAAAAAAGAAAATGGTATTCAGGTAAGTCAAAGGTGAAGTGAAAGATCAGAGGGACAGGTCTTATGCAAACCCCACTCTGAGATAAAATACAATAGCCTTGATGGTCTAGAGTATGTTGATGTTTTATTCTGGGTTTTTTTCTCCCAGGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGGTGTGTGTGTGTGGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCGCACGCACTCGTGCACTCAAGCACATACACAGGCACACACAAATGCATGTTTTGTTTGTTTTCTTTGGACAGGGCTTTAGAGACAAGGTTTCACTCTGTAGCTCCTGCTGGCCTCAAACTTACAACAATCCTCCTGCTTCAGTCCCCCCAGGCATGGGAGAAATACTGGGAGAATCACAGGCATGTGCCACCATTCTTGGCTGCTTTTGATCCCTCTAATACATATCTCTTAGACAGTAGACTTGCAAAAAAAAAAAATGGTGGAGTAGTTTAAATGATCTCATCCAGTCACAGTATACTGTGTGGGGGCCAGAGACAGCCTCTCTGTGATGAGGAAGAACTTTGGGTCAGAGGACTCTGTCTGCCTCCGGACTTTGGTATAATTCTACCGAAGCAAGGTTGGAAAGATTGAATCAAGGTGTTGAATCAAAGTGAAAAGGACAGAAAACAAAAAAATGAAGCTTCAAATATGTAAAGAGGGGGGCTCGAGAAATCAAATGTGAATTCTAAATGACATGGGTTTAGCTGGTGAATGGACCTCTGACTCCTCTTTGCTGTGTACAG
Seq C2 exon
TGGTGCCGCTCTTGCTGTTGATATGCCACTGTGGAGGGGGCGCCAAAGGCTTCACCCCCATTCCTGGGACAATAGAGATGCTGCACCCTTGGAATAATGAAGGGGCACCTCCTGAGGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000044393-Dsg2:NM_007883:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.195
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
GTACCAGTGTGCTGCTGC
R:
TCAGGAGGTGCCCCTTCATTA
Band lengths:
343-2011
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: