MmuINT1009121 @ mm10
Intron Retention
Gene
ENSMUSG00000001804 | Dsg4
Description
desmoglein 4 [Source:MGI Symbol;Acc:MGI:2661061]
Coordinates
chr18:20451748-20453073:+
Coord C1 exon
chr18:20451748-20451914
Coord A exon
chr18:20451915-20452938
Coord C2 exon
chr18:20452939-20453073
Length
1024 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAG
5' ss Score
8.27
3' ss Seq
TCGTTTTCATTCTAATTAAGCAA
3' ss Score
3.67
Exon sequences
Seq C1 exon
ATGCACTGGTGGTAAAGTTAAGTGCCACAGATGCAGATGAAGACAATCACTTGAATTCTAAAATTGCATACAAGATCATCTCCCAGGAGCCTGCTGGTGCACCCATGTTCATGGTGAACAGGTACACTGGAGAAGTCCGCACGATGTCCAATTTCCTTGACAGAGAG
Seq A exon
GTAAAGCCTTCTATGAATGAATGGTAACAATGAATTTGGTTTTGTAAAGACAAAGATGAGATAAATTGTGTGTGACCTTAGTCCAGTGCTCAGGAGGAAAGGAAAAATACTCTAGTCATTTTTAATGAAAATTAAATGGTCAGTGATACAGATTTCGTTTTATGCACCTATTAAAAAACAAATAATGGCACTGGGTCATTGTCTTAGTCAGGGTTTCTATTCCTTCACAAACATGACCAAAAAGCAAGTTGGGGAGGAAAGTATTTATTCAGCTTACACTTCTTTTTTGTTTGTTTGTTTGTTTGTTTTTATTAGGTATTTATTTCATTTACATTTCCAATGTTATCCCAAAAGTCCCCCACATCCTCTCACACACACTCCCCCACCCACCCACTCCCACTTCTTGGCCCTGGCGTTCCCCTGTACTGAGGCATATAAAGTTTGCAGGACCAATGGGCCTCTCTTTCCACTGGTGGCCGACTAGGCCATCTTCTGATACATATGCAGCTAGAGATATAAGCTCTGGGTGGGGGAGGGGGGTACTGGTTAGTTCATATTGTTGTTCCACCTATAGGGTTGCAGATCCCCCCCCCAGCTCCTTGGGTACTTTCTCTAGCTCCTCCATTGAGGGCCCTGTGATCCATCCAATAGCTGACTGTGAGCATCCACTTCTGTGTTTGCTAGGCCCTGGCATAATCTCACAAGAGACAGCTATATCAGGGTCCTTTCAGCAAAATCTTGCTAGTGTATGCAATGGTGTCAGTGTTTGGAGGCTGATTATGAGATGGATCCCTGGGTATGGCAGTCTCTAGATGGTCCTCAGCTTACACTTCTACATTGCTGTTCATTACCAAAGGAAGTCAAGACAGGAATTCAATCAGGTCAGGAAGTAGGAGCTGATACAAAGGTCATGGAGGGATGTTACTTACTGGCTTGCTTGAGTTCCAGATATAGTCAAGTTGACAACCAGGAATAGCCACTAAAAAATTGCTAAGCCTTCTAATTCGTTTTCATTCTAATTAAG
Seq C2 exon
CAACACAGTATGTACAATCTACTGGTGAGGGGCTCAGATCGGGATGGAGCCACAGATGGGCTGTCCTCTGAATGTGACTGCAGAATCAAGATTTTGGATGTCAATGATAATTTCCCCATCTTGGAGAAGACCTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001804:ENSMUST00000019426:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.018 A=NA C2=0.022
Domain overlap (PFAM):
C1:
PF0002812=Cadherin=FE(55.6=100)
A:
NA
C2:
PF0002812=Cadherin=PD(31.3=68.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGCACTGGTGGTAAAGTTAAGTG
R:
TGAGGTCTTCTCCAAGATGGGG
Band lengths:
302-1326
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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