HsaINT1011926 @ hg38
Intron Retention
Gene
ENSG00000175065 | DSG4
Description
desmoglein 4 [Source:HGNC Symbol;Acc:HGNC:21307]
Coordinates
chr18:31390656-31391212:+
Coord C1 exon
chr18:31390656-31390822
Coord A exon
chr18:31390823-31391077
Coord C2 exon
chr18:31391078-31391212
Length
255 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAG
5' ss Score
8.27
3' ss Seq
TCTTTTTCATCTTGATTAAGCAA
3' ss Score
3.91
Exon sequences
Seq C1 exon
ATACATTGGTAGTAAAGTTATGTGCCACAGATGCAGATGAAGAAAATCATCTGAATTCTAAAATTGCCTACAAGATCGTCTCTCAGGAGCCATCAGGTGCACCCATGTTCATTCTGAATAGGTACACTGGAGAAGTCTGCACCATGTCCAGTTTCTTGGACAGAGAG
Seq A exon
GTAAAGCCTTCTGTGAATGAACAAGAACTAAAAAATTCAATTTTGAAAAGACAAAGATAAAATGATCCATGTGTACCCTTACTCCAATATAAAGGAGGGAAGAAAAATAATCCATTTTTAATAAAAATTAAAAGCTCAATTATATAAATTTCATTGGATATGTAAATAAAAGAGTAGAGAAATAATGGCATTGAATGCATTGGATTCTATTCAAGACAAAACCTAAGTCTTACGTTCTTTTTCATCTTGATTAAG
Seq C2 exon
CAACACAGTATGTACAACCTGGTTGTGAGAGGCTCAGATCGGGATGGAGCTGCAGATGGACTGTCTTCTGAGTGTGACTGTAGAATCAAGGTTTTAGACGTCAACGATAATTTCCCCACCTTAGAGAAAACTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000175065:ENST00000308128:6
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=0.000
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
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTAAAGTTATGTGCCACAGATGCA
R:
TGAAGTTTTCTCTAAGGTGGGGA
Band lengths:
292-547
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains