BtaEX6056443 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000001819 | CDX2
Description
Bos taurus caudal type homeobox 2 (CDX2), mRNA. [Source:RefSeq mRNA;Acc:NM_001206299]
Coordinates
chr12:32317772-32322605:+
Coord C1 exon
chr12:32317772-32317821
Coord A exon
chr12:32321317-32321462
Coord C2 exon
chr12:32322372-32322605
Length
146 bp
Sequences
Splice sites
3' ss Seq
AACTTTGCCTTCCTCCACAGTGA
3' ss Score
9.41
5' ss Seq
CAGGTGGGA
5' ss Score
6.71
Exon sequences
Seq C1 exon
CCTGTGCGAGTGGATGCGGAAGCCCGCGCAGCCGGCGCTGGGCAGCCAAG
Seq A exon
TGAAAACCAGGACGAAAGACAAATACCGGGTCGTGTACACGGACCACCAGCGTCTGGAGCTGGAGAAGGAGTTTCACTACAGTCGCTATATCACCATCCGGAGGAAAGCCGAACTGGCCGCCACGCTGGGGCTCTCAGAGAGGCAG
Seq C2 exon
GTTAAAATTTGGTTTCAGAACCGCAGAGCAAAGGAAAGGAAAATCAACAAGAAGAAGTTGCAACAGCAGCAGCAACAGCCGCCCCCACCTTCTGGGCCACAGCCTCCCCAGCCACAGCCAGGTCCGCTGAGAAGCGTCCCAGAGCCCCTGAGCCCCGTGTCTTCCCTGCAAGGCTCAGTGCCTGGGGTTCTGGGGCCAGCTGGGGGGGTGTTAAACCCTACTGTCACCCAGTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001819-'0-2,'0-1,6-2=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=0.412 A=0.265 C2=0.831
Domain overlap (PFAM):
C1:
NO
A:
PF0004624=Homeobox=PU(73.7=85.7)
C2:
PF0004624=Homeobox=PD(22.8=16.7)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTGCGAGTGGATGCGG
R:
CCCAGAACCCCAGGCACT
Band lengths:
243-389
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]