BtaEX6006341 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000001726 | CDX4
Description
caudal type homeobox 4 [Source:HGNC Symbol;Acc:HGNC:1808]
Coordinates
chrX:82550494-82559474:-
Coord C1 exon
chrX:82558970-82559474
Coord A exon
chrX:82551923-82552068
Coord C2 exon
chrX:82550494-82550678
Length
146 bp
Sequences
Splice sites
3' ss Seq
ACTCCTTTCTCCCCTAACAGGGA
3' ss Score
11.65
5' ss Seq
CAGGTACAC
5' ss Score
7.29
Exon sequences
Seq C1 exon
CAGAAGCTGCCTTTTGGAAAAAGAAGCGGACATGTATTCCAGCACTCTCAGGAGCCCCGCAGGAGGTGGCACCGCCGGGGCTGGTGCCACTGGGGATGGTGGGAGTCCTCTGCCAGCCTCCAACTTCGCAGCGGCCCCTTCTTATGCGCACTACATGGGATATCCACATATGCCCGGTATGGATCCTCACGGGCCACCGCTGGGAGCCTGGGGGTCACCCTATAGTCCCCCTCGTGAAGACTGGAGCGTGTACCCCGGGCCATCCAGTACTATGGGTACGGTCCCCATGAACGACATGAGCTCGAGCCCCGCCGCTTTCAGCTCACTGGAATATAGCAATCTGGGCCCCGCAGGGGGTGGAAACAGCGGTAGCAGCCTGCCAACACCAGCCGGAGGATCACTGTTCCCCATCGACGCCGGCATCGCAGACGCAGACGAGAGTTCTAGCAGAAGCCGTCACAGCCCCTATGCATGGATGCGCAAGACAGTGCAGGTGACTG
Seq A exon
GGAAAACCAGGACAAAAGAAAAGTACCGCGTAGTTTACACAGATCATCAAAGGTTGGAGCTGGAGAAAGAATTCCACTGCAATAGATATATCACCATTCGGAGAAAATCAGAGCTTGCAGTCAACTTGGGCCTTTCTGAGAGACAG
Seq C2 exon
GTGAAAATCTGGTTTCAAAATCGCAGAGCCAAGGAGAGAAAGATGATCAAAAAGAAAATATCCCAGTTTGAGAACAGTGGAGGCTCAGTGCAAAGTGACTCTGGCTCCATCAGCCCTGGGGAACTACCTAATATTTTTTTCACCACCCCATCTGCTGTCCGTGGATTTCAGCCTATCGAGATTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001726-'0-1,'0-0,1-1=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
NA
No structure available
Features
Disorder rate (Iupred):
C1=0.669 A=0.061 C2=0.210
Domain overlap (PFAM):
C1:
PF047317=Caudal_act=PU(97.5=92.3)
A:
PF047317=Caudal_act=PD(1.9=6.1),PF0004624=Homeobox=PU(73.7=85.7)
C2:
PF0004624=Homeobox=PD(22.8=21.0)
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:
ATGAACGACATGAGCTCGAGC
R:
CTTTCTCTCCTTGGCTCTGCG
Band lengths:
256-402
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]