HsaALTA1003967-1/2 @ 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
NA
Coord C2 exon
chr16:68684583-68684824
Length
0 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TTCTTCCTCTTCTCTCCTAGGGT
3' ss Score
11.37
Exon sequences
Seq C1 exon
TACGAGGCCCATGTGCCTGAGAATGCAGTGGGCCATGAGGTGCAGAGGCTGACGGTCACTGATCTGGACGCCCCCAACTCACCAGCGTGGCGTGCCACCTACCTTATCATGGGCGGTGACGACGGGGACCATTTTACCATCACCACCCACCCTGAGAGCAACCAGGGCATCCTGACAACCAGGAAG
Seq A exon
NA
Seq C2 exon
GGTTTGGATTTTGAGGCCAAAAACCAGCACACCCTGTACGTTGAAGTGACCAACGAGGCCCCTTTTGTGCTGAAGCTCCCAACCTCCACAGCCACCATAGTGGTCCACGTGGAGGATGTGAATGAGGCACCTGTGTTTGTCCCACCCTCCAAAGTCGTTGAGGTCCAGGAGGGCATCCCCACTGGGGAGCCTGTGTGTGTCTACACTGCAGAAGACCCTGACAAGGAGAATCAAAAGATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000062038-18-23,18-22-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
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 Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
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