MmuEX6001837 @ mm9
Exon Skipping
Gene
ENSMUSG00000024619 | Cdx1
Description
caudal type homeobox 1 [Source:MGI Symbol;Acc:MGI:88360]
Coordinates
chr18:61178527-61195853:-
Coord C1 exon
chr18:61195330-61195853
Coord A exon
chr18:61180028-61180173
Coord C2 exon
chr18:61178527-61179595
Length
146 bp
Sequences
Splice sites
3' ss Seq
ATTGCCCTTCTGCTCCTCAGGTA
3' ss Score
9.17
5' ss Seq
CAGGTATGT
5' ss Score
9.8
Exon sequences
Seq C1 exon
CGGCCGGGCGCGGCGGCTCCAGGGCCCAGCATGCGCGGGGGACCCTGCGGTCACCATGTACGTGGGCTATGTGCTGGACAAGGACTCCCCCGTGTACCCAGGCCCCGCCAGACCCTCCAGCCTCGGCCTGGGCCCTCCGACCTATGCGCCCCCTGGCCCGGCGCCCGCGCCCCCGCAGTACCCCGACTTCGCGGGTTACACGCACGTGGAGCCGGCGCCCGCGCCCCCTCCGACCTGGGCTGCGCCCTTCCCTGCGCCCAAGGACGACTGGGCAGCTGCCTATGGCCCGGGCCCCACGGCCTCAGCCGCCAGCCCGGCCCCGCTGGCCTTCGGGCCCCCTCCGGACTTTAGCCCGGTGCCCGCGCCTCCCGGGCCTGGTCCCGGCATCCTGGCGCAGTCCCTCGGGGCTCCGGGCGCACCGTCCTCGCCAGGAGCGCCAAGGCGGACGCCCTACGAATGGATGCGGCGCAGCGTGGCGGCTGCAGGCGGCGGTGGCAGCG
Seq A exon
GTAAGACCCGAACCAAGGACAAGTACCGTGTGGTCTACACAGACCACCAACGCCTAGAGCTGGAAAAGGAGTTTCACTACAGCCGGTACATCACTATCCGGCGCAAGTCCGAGCTGGCTGCTAACCTGGGGCTCACAGAGCGGCAG
Seq C2 exon
GTAAAGATCTGGTTCCAGAACCGCCGGGCCAAGGAGCGCAAAGTAAACAAGAAGAAACAGCAGCAGCAGCAGCCCCTGCCTCCCACACAGCTGCCCCTGCCCCTGGATGGCACTCCCACACCATCAGGGCCACCCCTAGGAAGTCTATGCCCTACTAATGCTGGCCTTCTGGGCACCCCCTCCCCAGTGCCCGTCAAGGAGGAGTTTCTACCCTAGCCCCTTGCAGCCTGGGGTCTAGGGATCTAGGGACTTGAATGCTGGGCAGCTGGCTTTTCTGGGGCCCAAGGACCTGTTCTGAGTTGCAGCCCTGCTGCTGCCCTTTGGGGTCACTGTGGACAAACTGCCTACCTAGGACAAGTAGCTTGCCCTCTTCCTGCCTTCCGTTGGCTGGGCTGTGTGGTGAGCCTGTTGGACAAGGACCTCTTCCAGCTCTTGTGTCCTAGGCCACAGGGTGATGGGGAAGCCCAATGAGAAGTCTCAATCACCTGGAGATTTCCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024619-'0-2,'0-1,2-2=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=0.889 A=0.327 C2=0.901
Domain overlap (PFAM):
C1:
PF047317=Caudal_act=WD(100=90.6)
A:
PF0004624=Homeobox=PU(73.7=85.7)
C2:
PF0004624=Homeobox=PD(22.8=18.1)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTACGAATGGATGCGGCG
R:
AAACTCCTCCTTGACGGGCA
Band lengths:
258-404
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: