DreEX6058462 @ danRer10
Exon Skipping
Gene
ENSDARG00000036292 | cdx4
Description
caudal type homeobox 4 [Source:ZFIN;Acc:ZDB-GENE-980526-330]
Coordinates
chr14:32621404-32624855:-
Coord C1 exon
chr14:32624220-32624855
Coord A exon
chr14:32622362-32622507
Coord C2 exon
chr14:32621404-32622259
Length
146 bp
Sequences
Splice sites
3' ss Seq
TGACTTGGTTTTATTTTCAGGCA
3' ss Score
8.94
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
Exon sequences
Seq C1 exon
TTGGCTTGATGCATGGCTGGCATGTTGCCTTAAAAAAAGTTATTTTAGGGGTTTCTTCCAAATCATGTACGTTGGATACCTTTTGGAGAAAGAGGCAAGCATGTATCACCAAGGAGCGGTTCGTCGATCTGGCATCAGTCTTCCACCACAGAACTTTGTTTCCACACCTCAGTATTCAGATTTTACAGGATACCATCATGTGCCCAATATGGAGACACACGCACAGTCGGCAGGGGCATGGGGCGCTCCTTATGGCGCTCCGAGAGAGGACTGGGGCGCCTACAGCCTCGGACCTCCAAATTCTATTTCTGCACCTATGAGCAATTCATCTCCGGGACCAGTTTCCTATTGCTCGCCCGATTATAACACCATGCACGGCCCTGGATCGGCGGTTCTTCCTCCACCACCTGAAAATATTCCTGTGGCCCAACTATCCCCAGAGAGAGAAAGGCGTAATTCCTATCAGTGGATGAGCAAAACCGTCCAGTCGTCATCAACCG
Seq A exon
GCAAAACGAGAACGAAGGAGAAATACCGAGTGGTATACACAGATCACCAAAGGCTGGAGCTGGAGAAAGAGTTTCATTTTAATCGCTATATCACAATCAGAAGAAAATCCGAACTTGCTGTAAACCTCGGGCTTTCAGAGAGACAG
Seq C2 exon
GTTAAGATCTGGTTTCAGAACCGCAGAGCTAAGGAAAGGAAATTAATCAAAAAGAAATTGGGTCAGTCTGACGGAAGCGGAGGGTCAGTGCACAGCGACCCAGGCTCCGTCAGTCCTCTACCGGTACCAGGGTCACTGAGTCCTTCAGATATACACGGTTCTCTGTATCCAGCACAAATGAACGCCTTGCCGTCCATGAGGAACATACAGCAAGTTACTGTCACTCAGTGAACTCGAACTTGGAACATCCAACTTTAACTGAGCACTCCAACACGCTGAAAGGACAGAACCAAACGTGGTCAAAAAGGATTACAAACTATTAATGAATAAATGAATGAATAAATAAATAAGAGGCGTGGGTTGTGGATTACAACCGAAGAATCACGTCTGAAATGCGACGAAATGCTGGAGGCTCTTCAAATATTGTTTTAATAGAATAGTTTTTAAAATTAAGAAAAAAAACTACAAAAACCTTGTTCGTCTGATCCAGAGACTAAATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000036292-'0-1,'0-0,6-1=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=0.644 A=0.286 C2=0.575
Domain overlap (PFAM):
C1:
PF047317=Caudal_act=PU(98.5=91.1)
A:
PF047317=Caudal_act=PD(0.7=2.0),PF0004624=Homeobox=PU(73.7=85.7)
C2:
PF0004624=Homeobox=PD(22.8=16.9)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCCAGAGAGAGAAAGGCGTA
R:
CAAGGCGTTCATTTGTGCTGG
Band lengths:
255-401
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]