HsaEX6039689 @ hg19
Exon Skipping
Gene
ENSG00000165556 | CDX2
Description
caudal type homeobox 2 [Source:HGNC Symbol;Acc:1806]
Coordinates
chr13:28536278-28543505:-
Coord C1 exon
chr13:28542603-28543505
Coord A exon
chr13:28539007-28539152
Coord C2 exon
chr13:28536278-28537506
Length
146 bp
Sequences
Splice sites
3' ss Seq
CACTTCTCCTTCCTCCACAGTGA
3' ss Score
9.78
5' ss Seq
CAGGTGGGG
5' ss Score
6.92
Exon sequences
Seq C1 exon
CCCTAGCTCCGTGCGCCACTCTGGCGGCCTCAACCTGGCGCCGCAGAACTTCGTCAGCCCCCCGCAGTACCCGGACTACGGCGGTTACCACGTGGCGGCCGCAGCTGCAGCGGCAGCGAACTTGGACAGCGCGCAGTCCCCGGGGCCATCCTGGCCGGCAGCGTATGGCGCCCCACTCCGGGAGGACTGGAATGGCTACGCGCCCGGAGGCGCCGCGGCCGCCGCCAACGCCGTGGCTCACGGCCTCAACGGTGGCTCCCCGGCCGCAGCCATGGGCTACAGCAGCCCCGCAGACTACCATCCGCACCACCACCCGCATCACCACCCGCACCACCCGGCCGCCGCGCCTTCCTGCGCTTCTGGGCTGCTGCAAACGCTCAACCCCGGCCCTCCTGGGCCCGCCGCCACCGCTGCCGCCGAGCAGCTGTCTCCCGGCGGCCAGCGGCGGAACCTGTGCGAGTGGATGCGGAAGCCGGCGCAGCAGTCCCTCGGCAGCCAAG
Seq A exon
TGAAAACCAGGACGAAAGACAAATATCGAGTGGTGTACACGGACCACCAGCGGCTGGAGCTGGAGAAGGAGTTTCACTACAGTCGCTACATCACCATCCGGAGGAAAGCCGAGCTAGCCGCCACGCTGGGGCTCTCTGAGAGGCAG
Seq C2 exon
GTTAAAATCTGGTTTCAGAACCGCAGAGCAAAGGAGAGGAAAATCAACAAGAAGAAGTTGCAGCAGCAACAGCAGCAGCAGCCACCACAGCCGCCTCCGCCGCCACCACAGCCTCCCCAGCCTCAGCCAGGTCCTCTGAGAAGTGTCCCAGAGCCCTTGAGTCCGGTGTCTTCCCTGCAAGCCTCAGTGCCTGGCTCTGTCCCTGGGGTTCTGGGGCCAACTGGGGGGGTGCTAAACCCCACCGTCACCCAGTGACCCACCGGGTTCTGCAGCGGCAGAGCAATTCCAGGCTGAGCCATGAGGAGCGTGGACTCTGCTAGACTCCTCAGGAGAGACCCCTCCCCTCCCACCCACAGCCATAGACCTACAGACCTGGCTCTCAGAGGAAAAATGGGAGCCAGGAGTAAGACAAGTGGGATTTGGGGCCTCAAGAAATATACTCTCCCAGATTTTTACTTTTTCCCATCTGGCTTTTTCTGCCACTGAGGAGACAGAAAGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165556-'0-1,'0-0,1-1=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=0.569 A=0.367 C2=0.905
Domain overlap (PFAM):
C1:
PF047317=Caudal_act=WD(100=92.8)
A:
PF0004624=Homeobox=PU(73.7=85.7)
C2:
PF0004624=Homeobox=PD(22.8=15.3)
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:
CAGACTACCATCCGCACCAC
R:
CCTTTGCTCTGCGGTTCTGAA
Band lengths:
244-390
Functional annotations
There are 0 annotated functions for this event
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)