DreEX6007552 @ danRer10
Exon Skipping
Gene
ENSDARG00000102750 | cdh1
Description
cadherin 1, type 1, E-cadherin (epithelial) [Source:ZFIN;Acc:ZDB-GENE-010606-1]
Coordinates
chr7:52827499-52830354:-
Coord C1 exon
chr7:52830130-52830354
Coord A exon
chr7:52829476-52829606
Coord C2 exon
chr7:52827499-52827642
Length
131 bp
Sequences
Splice sites
3' ss Seq
AGTTGTCTTTCCTTCCCCAGTGC
3' ss Score
9.5
5' ss Seq
CAGGTTTGT
5' ss Score
7.44
Exon sequences
Seq C1 exon
AAACTGGTCATTTTCTGAATATCAAGCCTCAATCTCAGTTGGAACAGGGTGAATACAAGGTGGTCCTGAGAGTTGCTGATCGGGAGGGTGAATCTCAGGAGAATATTATTCAAGCAAGTGTGTGTGACTGCAAAGGAGAGGCATTCCAATGTACTGATAAACAAGTAGCAGGGATTCCACTGTTTGGAGTTCTTGGTGTCCTGGGAGGAATCTTACTTCTGCTAT
Seq A exon
TGCTTGCTCTTCTTCTGCTCATGTTCCTGCGGAGGAAAAGCAACTCCAAAAAAGAACCGCTCCTTCCAGAAGATGATGTACGGGACAACATCTACTATTATGATGAGGAAGGCGGTGGAGAAGATGATCAG
Seq C2 exon
GACTTTGATTTGAGTGTCCTGCACAGAGGCCTGGACAACAGACCAGAAGTGTTCAGGAATGATGTGGTGCCCACTTTCATGCCTGCACCTCAGTACAGACCTCGACCGGCCAACCCTGAGGAGATCGGCACATTCATTGATGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000102750-'17-22,'17-21,18-22=AN
Average complexity
A_S
Mappability confidence:
75%=100=50%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.159 C2=0.396
Domain overlap (PFAM):
C1:
PF0002812=Cadherin=PD(46.6=53.9)
A:
PF0104912=Cadherin_C=PU(40.2=75.0)
C2:
PF0104912=Cadherin_C=FE(57.3=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCGGGAGGGTGAATCTCAGG
R:
TCGAGGTCTGTACTGAGGTGC
Band lengths:
252-383
Functional annotations
There are 1 annotated functions for this event
PMID: 11076937
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]