HsaEX6044568 @ hg19
Exon Skipping
Gene
ENSG00000039068 | CDH1
Description
cadherin 1, type 1, E-cadherin (epithelial) [Source:HGNC Symbol;Acc:1748]
Coordinates
chr16:68857302-68863700:+
Coord C1 exon
chr16:68857302-68857529
Coord A exon
chr16:68862077-68862207
Coord C2 exon
chr16:68863557-68863700
Length
131 bp
Sequences
Splice sites
3' ss Seq
TGTCTCCCCCACCATCCCAGTTC
3' ss Score
6.42
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
Exon sequences
Seq C1 exon
CCCAAGAATCTATCATTTTGAAGCCAAAGATGGCCTTAGAGGTGGGTGACTACAAAATCAATCTCAAGCTCATGGATAACCAGAATAAAGACCAAGTGACCACCTTAGAGGTCAGCGTGTGTGACTGTGAAGGGGCCGCTGGCGTCTGTAGGAAGGCACAGCCTGTCGAAGCAGGATTGCAAATTCCTGCCATTCTGGGGATTCTTGGAGGAATTCTTGCTTTGCTAA
Seq A exon
TTCTGATTCTGCTGCTCTTGCTGTTTCTTCGGAGGAGAGCGGTGGTCAAAGAGCCCTTACTGCCCCCAGAGGATGACACCCGGGACAACGTTTATTACTATGATGAAGAAGGAGGCGGAGAAGAGGACCAG
Seq C2 exon
GACTTTGACTTGAGCCAGCTGCACAGGGGCCTGGACGCTCGGCCTGAAGTGACTCGTAACGACGTTGCACCAACCCTCATGAGTGTCCCCCGGTATCTTCCCCGCCCTGCCAATCCCGATGAAATTGGAAATTTTATTGATGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000039068-'16-17,'16-16,18-17=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.364 C2=0.438
Domain overlap (PFAM):
C1:
PF0002812=Cadherin=PD(44.9=51.9)
A:
PF0104912=Cadherin_C=PU(22.3=75.0)
C2:
PF0104912=Cadherin_C=FE(31.8=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCAGCGTGTGTGACTGTGAA
R:
ATTTCATCGGGATTGGCAGGG
Band lengths:
243-374
Functional annotations
There are 1 annotated functions for this event
PMID: 11076937
This event
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: cleavage reaction, confocal microscopy, edman degradation, western blot. ELM ID: ELMI001928; ELM sequence: DTRDN; Overlap: FULL
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
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)