HsaALTA1003967-2/2 @ hg38
Alternative 3'ss
Gene
ENSG00000062038 | CDH3
Description
cadherin 3 [Source:HGNC Symbol;Acc:HGNC:1762]
Coordinates
chr16:68682302-68684824:+
Coord C1 exon
chr16:68682302-68682487
Coord A exon
chr16:68684533-68684582
Coord C2 exon
chr16:68684583-68684824
Length
50 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
ATCTCAACTGTCCTGCACAGGAC
3' ss Score
7.58
Exon sequences
Seq C1 exon
TACGAGGCCCATGTGCCTGAGAATGCAGTGGGCCATGAGGTGCAGAGGCTGACGGTCACTGATCTGGACGCCCCCAACTCACCAGCGTGGCGTGCCACCTACCTTATCATGGGCGGTGACGACGGGGACCATTTTACCATCACCACCCACCCTGAGAGCAACCAGGGCATCCTGACAACCAGGAAG
Seq A exon
GACCTCCTCTCAAAATGGTGGTCCAGGTCCTTCTTCCTCTTCTCTCCTAG
Seq C2 exon
GGTTTGGATTTTGAGGCCAAAAACCAGCACACCCTGTACGTTGAAGTGACCAACGAGGCCCCTTTTGTGCTGAAGCTCCCAACCTCCACAGCCACCATAGTGGTCCACGTGGAGGATGTGAATGAGGCACCTGTGTTTGTCCCACCCTCCAAAGTCGTTGAGGTCCAGGAGGGCATCCCCACTGGGGAGCCTGTGTGTGTCTACACTGCAGAAGACCCTGACAAGGAGAATCAAAAGATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000062038-18-23,18-22-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.677 A=NA C2=0.272
Domain overlap (PFAM):
C1:
PF0002812=Cadherin=PU(61.0=98.4)
A:
NA
C2:
PF0002812=Cadherin=PD(37.0=45.7),PF0002812=Cadherin=PU(31.6=37.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
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:
TTTACCATCACCACCCACCCT
R:
TGGGAGCTTCAGCACAAAAGG
Band lengths:
135-185
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains