HsaINT0032168 @ hg38
Intron Retention
Gene
ENSG00000062038 | CDH3
Description
cadherin 3 [Source:HGNC Symbol;Acc:HGNC:1762]
Coordinates
chr16:68644836-68645750:+
Coord C1 exon
chr16:68644836-68645424
Coord A exon
chr16:68645425-68645635
Coord C2 exon
chr16:68645636-68645750
Length
211 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTC
5' ss Score
7.04
3' ss Seq
CTCTCTGCCCTCGGGCGCAGGTT
3' ss Score
9.86
Exon sequences
Seq C1 exon
GGCTGGCACGGGAGGTGGAGAAAGAGGCTTGGGCGGCCCCGCTGTAGCCGCGTGTGGGAGGACGCACGGGCCTGCTTCAAAGCTTTGGGATAACAGCGCCTCCGGGGGATAATGAATGCGGAGCCTCCGTTTTCAGTCGACTTCAGATGTGTCTCCACTTTTTTCCGCTGTAGCCGCAAGGCAAGGAAACATTTCTCTTCCCGTACTGAGGAGGCTGAGGAGTGCACTGGGTGTTCTTTTCTCCTCTAACCCAGAACTGCGAGACAGAGGCTGAGTCCCTGTAAAGAACAGCTCCAGAAAAGCCAGGAGAGCGCAGGAGGGCATCCGGGAGGCCAGGAGGGGTTCGCTGGGGCCTCAACCGCACCCACATCGGTCCCACCTGCGAGGGGGCGGGACCTCGTGGCGCTGGACCAATCAGCACCCACCTGCGCTCACCTGGCCTCCTCCCGCTGGCTCCCGGGGGCTGCGGTGCTCAAAGGGGCAAGAGCTGAGCGGAACACCGGCCCGCCGTCGCGGCAGCTGCTTCACCCCTCTCTCTGCAGCCATGGGGCTCCCTCGTGGACCTCTCGCGTCTCTCCTCCTTCTCCAG
Seq A exon
GTACTCCACAGCCTCGCCGTGGCCCCGACCGGGACCGCTCCCTGGGGGGCGGGCGGGGTCCGCATGGGGCAGTGGCGTCGGGGAGAGCGCGGGGCTGCGCTCCCTGGGGCCAAGGGAGTCCCGGAAGGCCCGTGAGGACCCTGCGGTGTGGGGAGTGCAGGGCCGGGCACGCCTGGACCCAGCCTCCTTCACTCTCTGCCCTCGGGCGCAG
Seq C2 exon
GTTTGCTGGCTGCAGTGCGCGGCCTCCGAGCCGTGCCGGGCGGTCTTCAGGGAGGCTGAAGTGACCTTGGAGGCGGGAGGCGCGGAGCAGGAGCCCGGCCAGGCGCTGGGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000062038:ENST00000264012:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.288
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF087586=Cadherin_pro=PU(38.9=71.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTCAACCGCACCCACATC
R:
TCCAAGGTCACTTCAGCCTCC
Band lengths:
308-519
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development