HsaINT0052440 @ hg19
Intron Retention
Gene
ENSG00000134757 | DSG3
Description
desmoglein 3 [Source:HGNC Symbol;Acc:3050]
Coordinates
chr18:29045281-29046717:+
Coord C1 exon
chr18:29045281-29045420
Coord A exon
chr18:29045421-29046492
Coord C2 exon
chr18:29046493-29046717
Length
1072 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGA
5' ss Score
9.48
3' ss Seq
CTAAAACATTGTTCTTACAGAAT
3' ss Score
6.65
Exon sequences
Seq C1 exon
ATATGTCATGGGACGTAACGATGGTGGATACCTAATGATTGATTCAAAAACTGCTGAAATCAAATTTGTCAAAAATATGAACCGAGATTCTACTTTCATAGTTAACAAAACAATCACAGCTGAGGTTCTGGCCATAGATG
Seq A exon
GTAAGAAAAATATTTGAATCATTTCAGAGGAATGTTATCGTAATTGATGTTTCTTTATGCATAGATGATTATGATTATTCAACATATTATCTTTACCACTGGAGAGAGAGAATTATCTTAGGAGTGTTGGGCCTCAAGTTTGAGGCAGCTGAATCCGGGAGAGAAAACTAAGAGTTTCAACTTCTCAGTGGAGATTGAACCAGTGAATTCTGTGTTAGGTCCCTGTGGTTTGCTGTGGTTGAAGCAGAAATTTTTTGACTGACAGAAATCCCTGGGTTTGAGGGAATGGATAAGGATTCATAGACAAAGCGCATCAGGGAATCTCAACTTGAACGTCAGGTGCTTTTGTGAGGTACCTATAGAGACCTCATGTACTTTTATCATTGAACAATGCAATTTCCTCTTCTGGAATGTTTTAAAATAATATTCATTGAGTGTATGTGTTTCCCCAAGTATAAAATTAATTTATGTTGAAGGTAATAAAAAAGATAACACCCCCCAAAAGAAATAAGTATCAAAAAGATTGCCATTTGGGAAAACAAGAAAAGAAGTAGTAAGGGTAACAACAGAAATGACACATAATGCCCCCACAGAGAGATTTTTATTTCATTATTTTTTATTTTCAGCATTTAAAATTTTTCTTTAATAAACTTTAACATTTTGAGTAATAAAAATATACAATTTTTTATTCCAAATAAAAAATGTGTGCTTTAGAAGCAGAAACTTTTCACACATTGATTACAAGTGAAATCAACACATTTAAGAAAGTTACTATTTTTGTGCTGATTTTATTTGAAATTGGTGAATTCATCATCTTACTGGTCTTGGGTTCGAGCATATTAAATTAATTCTCAATTAATTATAGTTAGAGACATCAGCCTATTTGGTAAATTTCAATTTGCTTTTTACAAGATGCAGAAATAGGATGACTATTTTTACTTCTGAGGATAATATAGTATTTCATGAGAAGACACACTGAGTTGGCTACAGAAAAGAGAAATGTAAAAGATTCTCCTTTTTTGTACAACTTTGTTCTATACATTTCTTTAACTCTAAAACATTGTTCTTACAG
Seq C2 exon
AATACACGGGTAAAACTTCTACAGGCACGGTATATGTTAGAGTACCCGATTTCAATGACAATTGTCCAACAGCTGTCCTCGAAAAAGATGCAGTTTGCAGTTCTTCACCTTCCGTGGTTGTCTCCGCTAGAACACTGAATAATAGATACACTGGCCCCTATACATTTGCACTGGAAGATCAACCTGTAAAGTTGCCTGCCGTATGGAGTATCACAACCCTCAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000134757-DSG3:NM_001944:10
Average complexity
IR-S
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(51.1=100)
A:
NA
C2:
PF0002812=Cadherin=PD(16.3=19.7)
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:
CATGGGACGTAACGATGGTGG
R:
TGATACTCCATACGGCAGGCA
Band lengths:
347-1419
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)