HsaINT0052299 @ hg19
Intron Retention
Gene
ENSG00000134762 | DSC3
Description
desmocollin 3 [Source:HGNC Symbol;Acc:3037]
Coordinates
chr18:28586873-28588124:-
Coord C1 exon
chr18:28587982-28588124
Coord A exon
chr18:28587098-28587981
Coord C2 exon
chr18:28586873-28587097
Length
884 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAA
5' ss Score
8.38
3' ss Seq
CCTTATTCCTGTCTCCTTAGATG
3' ss Score
9.82
Exon sequences
Seq C1 exon
GTACAAAAAATTGCATGATCCTAAAGGTTGGATCACCATTGATGAAATTTCAGGGTCAATCATAACTTCCAAAATCCTGGATAGGGAGGTTGAAACTCCCAAAAATGAGTTGTATAATATTACAGTCCTGGCAATAGACAAAG
Seq A exon
GTAAAAAAAAAGTTTTAATCTGGTATTCTATAAAGGAATTAGAGAATAAAATGTAATTATTCTTATGCAGATTTATTTTGGTGGTAAGTGTATGGAATTCTTTGAAATTACTTTAAAGACTCTTTCTGTCTCTCTTAATTATCTAACAAGGTGAAACTGTTTGGTGACAAGAAGCCGTGTTTTATTTATCTTTATATCCCCAATAGGGCAGGACCTTAAATTCTTATGTATTTCTATGCTAGAGGACAAAAATAAAACTGAAATCTAAAACTAGATAAAATGGTCTCATCAGACTCTTCCACATCCGTTTGTGTCACTTTAAATTGAGCTTTTATATAGTTCAGCTGCATATTAGGTCAAAATGATCCTTTTCTTGAATTCTGTTCCTTAAAGTAACCTAGAGTTTTTCAACCTTGTCTTCACATTAAAATAAAAATATTAATCTGTAGATACTTTGTTAGACTAACTGAATCAGAATATCCGGTTGTGGAGCCTAGGAATCTTATATTTTAAAAAAATCTTCCTAGTGGTTTGAATATATACTGGGATTAGAAATCTTATCTGTAACCACTTTACTGCTTACTAACATGTGGCACCTGGAACCCCCAAAAATAGAGATTGAAATTCAGACATTTATTTTTATTTGGTAGTAATTCTGGTAAAAGATTTATTGACAGTTGTATCTGATATTATCAGTAGCAATAGTCATTTCAAATTAGCTGCAGATTCTATTTATCTGTCTATGTTCTTATTTATTTATCATTTCCTTTAATAATCAGTTTATTTAAAAACAGATCATGTATAGAATATAATTGACTTTTTATTCTTTAAGAAACTATGAAAGAATTTTAAAATAACACTAAACCTTATTCCTGTCTCCTTAG
Seq C2 exon
ATGATAGATCATGTACTGGAACACTTGCTGTGAACATTGAAGATGTAAATGATAATCCACCAGAAATACTTCAAGAATATGTAGTCATTTGCAAACCAAAAATGGGGTATACCGACATTTTAGCTGTTGATCCTGATGAACCTGTCCATGGAGCTCCATTTTATTTCAGTTTGCCCAATACTTCTCCAGAAATCAGTAGACTGTGGAGCCTCACCAAAGTTAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000134762-DSC3:NM_001941:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.020 A=NA C2=0.039
Domain overlap (PFAM):
C1:
PF0002812=Cadherin=FE(51.6=100)
A:
NA
C2:
PF0002812=Cadherin=PD(14.0=17.1),PF0002812=Cadherin=PU(50.0=52.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATCCTAAAGGTTGGATCACCA
R:
GGTGAGGCTCCACAGTCTACT
Band lengths:
343-1227
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)