HsaEX6100627 @ hg19
Exon Skipping
Gene
ENSG00000113722 | CDX1
Description
caudal type homeobox 1 [Source:HGNC Symbol;Acc:1805]
Coordinates
chr5:149546359-149564121:+
Coord C1 exon
chr5:149546359-149546884
Coord A exon
chr5:149562331-149562476
Coord C2 exon
chr5:149563037-149564121
Length
146 bp
Sequences
Splice sites
3' ss Seq
CGGCTCCTTCTGCTTCTCAGGTA
3' ss Score
8.33
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
Exon sequences
Seq C1 exon
CGGCCGGCAGCGGCGGCTCCAGGGCCCAGCATGCGCGGGGGACCCCGCGGCCACCATGTATGTGGGCTATGTGCTGGACAAGGATTCGCCCGTGTACCCCGGCCCAGCCAGGCCAGCCAGCCTCGGCCTGGGCCCGCAAGCCTACGGCCCCCCGGCCCCGCCCCCGGCGCCCCCGCAGTACCCCGACTTCTCCAGCTACTCTCACGTGGAGCCGGCCCCCGCGCCCCCGACGGCCTGGGGGGCGCCCTTCCCTGCGCCCAAGGACGACTGGGCCGCCGCCTACGGCCCGGGCCCCGCGGCCCCTGCCGCCAGCCCAGCTTCGCTGGCATTCGGGCCCCCTCCAGACTTTAGCCCGGTGCCGGCGCCCCCTGGGCCCGGCCCGGGCCTCCTGGCGCAGCCCCTCGGGGGCCCGGGCACACCGTCCTCGCCCGGAGCGCAGAGGCCGACGCCCTACGAGTGGATGCGGCGCAGCGTGGCGGCCGGAGGCGGCGGTGGCAGCG
Seq A exon
GTAAGACTCGGACCAAGGACAAGTACCGCGTGGTCTACACCGACCACCAACGCCTGGAGCTGGAGAAGGAGTTTCATTACAGCCGTTACATCACAATCCGGCGGAAATCAGAGCTGGCTGCCAATCTGGGGCTCACTGAACGGCAG
Seq C2 exon
GTGAAGATCTGGTTCCAAAACCGGCGGGCAAAGGAGCGCAAAGTGAACAAGAAGAAACAGCAGCAGCAACAGCCCCCACAGCCGCCGATGGCCCACGACATCACGGCCACCCCAGCCGGGCCATCCCTGGGGGGCCTGTGTCCCAGCAACACCAGCCTCCTGGCCACCTCCTCTCCAATGCCTGTGAAAGAGGAGTTTCTGCCATAGCCCCATGCCCAGCCTGTGCGCCGGGGGACCTGGGGACTCGGGTGCTGGGAGTGTGGCTCCTGTGGGCCCAGGAGGTCTGGTCCGAGTCTCAGCCCTGACCTTCTGGGACATGGTGGACAGTCACCTATCCACCCTCTGCATCCCCTTGGCCCATCTGTGCAGTAAGCCTGTTGGATAAAGACCTTCCAGCTCCTGTGTTCTAGACCTCTGGGGGATAAGGGAGTCCAGGGTGGATGATCTCAATCTCCCGTGGGCATCTCAAGCCCCAAATGGTTGGGGGAGGGGCCTAGACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000113722-'2-2,'2-1,3-2=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=0.883 A=0.306 C2=0.897
Domain overlap (PFAM):
C1:
PF047317=Caudal_act=WD(100=90.6)
A:
PF0004624=Homeobox=PU(73.7=85.7)
C2:
PF0004624=Homeobox=PD(22.8=18.8)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGCCCCCTCCAGACTTTAG
R:
GCTGTTGCTGCTGCTGTTTC
Band lengths:
242-388
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)