RnoEX0019557 @ rn6
Exon Skipping
Gene
ENSRNOG00000032759 | Cdx2
Description
caudal type homeo box 2 [Source:RGD Symbol;Acc:621234]
Coordinates
chr12:9465759-9467962:+
Coord C1 exon
chr12:9465759-9465859
Coord A exon
chr12:9466258-9466391
Coord C2 exon
chr12:9467817-9467962
Length
134 bp
Sequences
Splice sites
3' ss Seq
TCATCCCTCCCCTCTTCCAGCCC
3' ss Score
9.64
5' ss Seq
AAGGCGAGG
5' ss Score
1.4
Exon sequences
Seq C1 exon
GGGAGAAGCCTACAGATTAGCCTCCAGTGGGCTTTGGCATTGTCGTTTCCAAGAAGACTTACTCCCAATCCTGTCCGAAGGAAAGAGAGCGCAGATCGCCG
Seq A exon
CCCCCTTCCTTGGTTCCCAGGGGGTGCGGGGCGCCTGCAAGACCCTTGGGGAACGGACCGCAGAGCTCACGGAATCACCATCTTTGCGTTCCCCAGCCAGCGCGTGGTGCTCTCAAGGCAGCATCCATCCTAAG
Seq C2 exon
TGAAAACCAGGACGAAAGACAAATACCGGGTGGTGTACACAGACCATCAGCGGCTGGAGCTGGAGAAGGAATTTCACTATAGTCGATACATCACCATCAGGAGGAAAGCTGAGTTGGCCGCCACACTCGGGCTCTCGGAGAGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000032759-'1-1,'1-0,2-1
Average complexity
C3
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=NA A=0.822 C2=0.306
Domain overlap (PFAM):
C1:
NA
A:
NO
C2:
PF0004624=Homeobox=PU(73.7=85.7)
Main Inclusion Isoform:
ENSRNOT00000048188fB2819
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
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:
GGGAGAAGCCTACAGATTAGCC
R:
CTCTCCGAGAGCCCGAGTG
Band lengths:
243-377
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]