HsaALTA1003968-2/2 @ hg38
Alternative 3'ss
Gene
ENSG00000062038 | CDH3
Description
cadherin 3 [Source:HGNC Symbol;Acc:HGNC:1762]
Coordinates
chr16:68695777-68698472:+
Coord C1 exon
chr16:68695777-68695923
Coord A exon
chr16:68698093-68698190
Coord C2 exon
chr16:68698191-68698472
Length
98 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
TCTACCTCCAAAACCTTTAGGGG
3' ss Score
6.7
Exon sequences
Seq C1 exon
GACTATGACATCACCCAGCTCCACCGAGGTCTGGAGGCCAGGCCGGAGGTGGTTCTCCGCAATGACGTGGCACCAACCATCATCCCGACACCCATGTACCGTCCTCGGCCAGCCAACCCAGATGAAATCGGCAACTTTATAATTGAG
Seq A exon
GGGAGGGGAGAGAGGGGCTCACAGAGAGGAAATGGAGGCTTGCAGCTGGCAAGAGGCAGGACCCGCCGCTCCTAACTACCTGTTCTCTGTTGCCGCAG
Seq C2 exon
AACCTGAAGGCGGCTAACACAGACCCCACAGCCCCGCCCTACGACACCCTCTTGGTGTTCGACTATGAGGGCAGCGGCTCCGACGCCGCGTCCCTGAGCTCCCTCACCTCCTCCGCCTCCGACCAAGACCAAGATTACGATTATCTGAACGAGTGGGGCAGCCGCTTCAAGAAGCTGGCAGACATGTACGGTGGCGGGGAGGACGACTAGGCGGCCTGCCTGCAGGGCTGGGGACCAAACGTCAGGCCACAGAGCATCTCCAAGGGGTCTCAGTTCCCCCTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000062038-31-36,31-35-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=0.294 A=NA C2=0.484
Domain overlap (PFAM):
C1:
PF0104912=Cadherin_C=PD(62.0=66.3)
A:
NA
C2:
PF0104912=Cadherin_C=PD(43.3=92.9)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
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:
GAGGTGGTTCTCCGCAATGAC
R:
GCTGCCCTCATAGTCGAACAC
Band lengths:
177-275
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains