MmuINT0053471 @ mm10
Intron Retention
Gene
ENSMUSG00000044393 | Dsg2
Description
desmoglein 2 [Source:MGI Symbol;Acc:MGI:1196466]
Coordinates
chr18:20591834-20592499:+
Coord C1 exon
chr18:20591834-20591976
Coord A exon
chr18:20591977-20592271
Coord C2 exon
chr18:20592272-20592499
Length
295 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
CTCTCCTGCTTGGTTTCAAGAAC
3' ss Score
6.24
Exon sequences
Seq C1 exon
ATATGTAAAAGTGCAAGACACTGACAACTGGGTCTCTGTGGACTCCGTCACTTCAGAGATTAAGCTTGTAAAGATTCCTGACTTTGAATCTAGATATGTCCAAAATGGTACCTACACTGCAAAGGTTGTGGCCATATCCAAAG
Seq A exon
GTAAGTTTAATAAACAGATGTCTTTCGTGGCTAAATGCTTTTAGATTTTATCTTGCACCACCAGAAGTATTTGTCCTGACTGTGTATAAATGGCCTCATCCGTGGTTAAGGCTGTGTGCGCATTTTTGCTTATTTATTTAGTAACTTCGCACTGATAGGAACCTGAGAGCTGGCTATGGGCGGTATCCTCAGTGCTTAGCACCCACTCCTTATCTGATTAGCTTCTGTACTGAATCTGTGTCCGTGCTCAGTGATACACTCAGAAAGTCTGAACTCTCTCCTGCTTGGTTTCAAG
Seq C2 exon
AACATCCTCAAAAAACCATCACTGGCACCATCGTTATCACTGTTGAAGACGTCAATGACAATTGTCCCGTGCTGGTGGACTCTGTACGGAGTGTCTGTGAGGATGAACCATATGTGAATGTCACTGCAGAGGATTTGGATGGGGCCCAGAACAGTGCGCCATTCAGCTTCTCCATCATTGACCAGCCTCCTGGAACGGCACAGAAGTGGAAAATAACGCACCAGGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000044393:ENSMUST00000059787:10
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=0.013
Domain overlap (PFAM):
C1:
PF0002812=Cadherin=FE(51.1=100)
A:
NA
C2:
PF0002812=Cadherin=PD(16.0=19.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCTCTGTGGACTCCGTCACT
R:
GTTCCAGGAGGCTGGTCAATG
Band lengths:
308-603
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