DreEX0020568 @ danRer10
Exon Skipping
Gene
ENSDARG00000058999 | cdx1b
Description
caudal type homeobox 1 b [Source:ZFIN;Acc:ZDB-GENE-070615-29]
Coordinates
chr21:43984306-43996788:-
Coord C1 exon
chr21:43996321-43996788
Coord A exon
chr21:43987130-43987278
Coord C2 exon
chr21:43984306-43985602
Length
149 bp
Sequences
Splice sites
3' ss Seq
ACTTTTGTTGTTGTTTTTAGGAG
3' ss Score
10.83
5' ss Seq
CAGGTCAGC
5' ss Score
7.16
Exon sequences
Seq C1 exon
GATCAATTTTTGGGGGGAGTGCAAACTATGCACTGGAGCCACCAGAAAAAATGTACGTGAGTTATCTCCTAGATAAGGACTCCAGCATGTACCCGAATTCCGTAAGACACCCAAGCCTAAATTTAAACCCTCAGAATTTCGTACCGGCGCCTCCACAGTATCCGGACTTTACAGGATACCATCACGTCCCGGGAATTACCACTAATGACCCGCATCACAGCCAGACGGGCAGCTGGAACCCCGCTTACCCCCCTCCGCGGGAGGAATGGACACCTTACGGGCCGGGATCAGGAGTGTCCAGCTCGAGCACAGGTCAGCTGGGCTTCAGTCCTCCAGAGTTTTCATCTGTCCAAACTCCGGGTCTGCTCCAATCCTCCATCAACTCTTCAGTCGGACAGCTGTCACCCAACGCGCAGAGACGCAACCCTTACGACTGGATGCGCCGCAGCGTCCCGCCCGCCAGCTCAG
Seq A exon
GAGGGAAGACCAGAACAAAAGACAAATACCGGGTGGTGTACACAGATCATCAGCGTCTGGAGCTGGAGAAAGAGTTTCATTACAGCCGCTACATCACAATAAGAAGAAAAGCAGAACTGGCAACCGCACTCAGTCTGTCAGAGAGACAG
Seq C2 exon
GTGAAGATCTGGTTCCAGAACCGCCGTGCTAAAGAGAGGAAAATCAATAAGAAGAAAATGCAGCAGCCTCAGCCGGCATCCACCACCACACCCACCCCACCGGGCTCAGCACTACCAGGCAATGTGCCGATGGTGACCAGCAGCAGTAGCGGTGGCCTCGTGTCCCCGCCCATGCCAATGTCCATCAAAGAAGAGTATTGAGGACTCGGAAAACCTGGACTGATAGAGATTTTTATATCGAAACACACTAATCCAACACAGGGTACTCTTCATGAAATCAGCACATCTTTCCTGGAGCACTGAAAATAATGTTGTTGCAAACGATTTATGTGGGCTGAAGTTAAACAAACAAAAATGAGTTGAGTAGTGTTCAGCTTAATTTGTTTGTTTAAATTTAGCCCAAATAAAGTATTTGCAACCACACGCCTTAAAAGAATTCATCCAGCAGGCACAGGACGTCAACATGACCTCAGACTGACGTTGTAGGTCAACATCATGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000058999-'0-1,'0-0,1-1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.864 A=0.300 C2=0.864
Domain overlap (PFAM):
C1:
PF047317=Caudal_act=PU(98.4=90.7)
A:
PF047317=Caudal_act=PD(0.8=2.0),PF0004624=Homeobox=PU(73.7=84.0)
C2:
PF0004624=Homeobox=PD(22.8=19.4)
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:
TCATCTGTCCAAACTCCGGGT
R:
CACATTGCCTGGTAGTGCTGA
Band lengths:
253-402
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]