MmuEX0010692 @ mm10
Exon Skipping
Gene
ENSMUSG00000029646 | Cdx2
Description
caudal type homeobox 2 [Source:MGI Symbol;Acc:MGI:88361]
Coordinates
chr5:147300805-147307270:-
Coord C1 exon
chr5:147306445-147307270
Coord A exon
chr5:147303181-147303326
Coord C2 exon
chr5:147300805-147302093
Length
146 bp
Sequences
Splice sites
3' ss Seq
AACTTCTCCTTCCTCCACAGTGA
3' ss Score
9.26
5' ss Seq
CAGGTGGGA
5' ss Score
6.71
Exon sequences
Seq C1 exon
GTATCCTAGCTCCGTGCGCCACTCCGGCGGCCTGAACCTGGCTCCGCAGAACTTTGTCAGTCCTCCGCAGTACCCGGACTACGGTGGTTACCACGTGGCGGCCGCGGCGGCTGCTACGGCGAACTTGGACAGCGCTCAGTCCCCAGGGCCATCCTGGCCCACCGCGTACGGCGCCCCTCTCCGCGAGGACTGGAATGGCTACGCACCCGGGGGCGCTGCGGCAGCCAACGCGGTAGCCCACGGTCTCAATGGTGGCTCCCCGGCCGCCGCTATGGGCTACAGCAGCCCCGCCGAATACCACGCGCACCATCACCCGCATCATCACCCGCACCATCCGGCCGCCTCGCCGTCCTGCGCCTCCGGCTTGCTGCAGACGCTCAACCTCGGCCCCCCGGGGCCCGCAGCCACCGCCGCCGCCGAACAGCTGTCCCCCAGCGGCCAGCGGCGAAACCTGTGCGAGTGGATGCGGAAGCCCGCGCAGCAGTCCCTAGGAAGCCAAG
Seq A exon
TGAAAACCAGGACAAAAGACAAATACCGGGTGGTGTACACAGACCATCAGCGGCTGGAGCTGGAGAAGGAGTTTCACTTTAGTCGATACATCACCATCAGGAGGAAAAGTGAGCTGGCTGCCACACTTGGGCTCTCCGAGAGGCAG
Seq C2 exon
GTTAAAATTTGGTTTCAGAACCGCAGAGCCAAGGAGAGGAAAATCAAGAAGAAGCAGCAGCAGCAACAGCAGCAGCAGCAACAACAGCCTCCACAGCCGCCGCCACAACCTTCCCAGCCTCAGCCGGGTGCCCTGCGGAGCGTGCCCGAGCCCTTGAGTCCTGTGACCTCCTTGCAAGGCTCAGTGCCTGGTTCTGTCCCTGGGGTTCTGGGGCCAGCTGGAGGGGTTTTAAACTCCACTGTCACCCAGTGACCCCTCCCGTGGTCTGAAGCGGCGGCGGCACAGCAATCCCAGGCTGAGCCATGAGGAGTATGGACGCTGCGAGAATCCTCAGAAGAGATTCCTCTCCTCCTACCCACGAACAGCATCTACTGATGGAGATTGAGGACAGAAGATGAGTGGAATTATGGACCTCAGGGGAAGACATGGTTTAGATTTTTTTTTTCTTTTTAACTTTTCCCATTCCGACTCTTCCTGCCAGCAACGACAAACGAAGTGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029646_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.589 A=0.306 C2=0.904
Domain overlap (PFAM):
C1:
PF047317=Caudal_act=WD(100=92.8)
A:
PF0004624=Homeobox=PU(73.7=85.7)
C2:
PF0004624=Homeobox=PD(22.8=15.5)
Main Skipping Isoform:
ENSMUST00000031650fB7468
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:
AGCAGTCCCTAGGAAGCCAAG
R:
TTTAAAACCCCTCCAGCTGGC
Band lengths:
254-400
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types