DreEX6096608 @ danRer10
Exon Skipping
Gene
ENSDARG00000067859 | scospondin
Description
subcommissural organ spondin [Source:ZFIN;Acc:ZDB-GENE-051114-1]
Coordinates
chr24:40178496-40186166:+
Coord C1 exon
chr24:40178496-40178726
Coord A exon
chr24:40183608-40183708
Coord C2 exon
chr24:40185959-40186166
Length
101 bp
Sequences
Splice sites
3' ss Seq
ATAATTGTCATTTTGTCCAGATA
3' ss Score
6.03
5' ss Seq
ACGGTATAC
5' ss Score
4.72
Exon sequences
Seq C1 exon
GATGCAGTCAGTTTGAGTTCGGCTGCACCAGTGGTCAGTGTGTGCCGCTAGCGTGGCGCTGTGATGGAGAGACAGACTGTCTGGACGGCAGTGATGAGAAACGCTGTTCCCGCACTTGTCAATCTGACCAGTTCCTCTGCCAGAGCGGAGACCAGTGCGTCCAGTACCAGCAGCTCTGTGACGGGACGCCAAACTGTAGAGATGCCTCCGACGAGAGCCTGGACAACTGCG
Seq A exon
ATAAGGTGAGACCCTCCGCAGCGCCCCCAAGTGAAGGAAACATCAGTCGCATCTGTCCAGAGTTCACCTGTGCTGACGGATCCTGCGTTCCCTTTAATACG
Seq C2 exon
ATGTGTAATGGAGTATCAGACTGTCCCGGGACGGAGGCTTCAGATGAGTCTGGCTGTGGGGTTTGGGGTCCTTGGGGCCCCTGGAGCGCCTGCAGTCGGAGCTGTGGATCGGGAATCATGAGCCGACAGAGAAGCTGCAGTCCGGGGCTTTCAGACTGTAGAGGACACAAAAAACAACGCCAGCAGTGCTACTCCACCGCCTGTGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000067859-'29-34,'29-33,31-34=AN
Average complexity
A_C3
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0005713=Ldl_recept_a=PD(94.6=44.9),PF0005713=Ldl_recept_a=WD(100=51.3)
A:
PF0005713=Ldl_recept_a=PU(44.4=47.1)
C2:
PF0005713=Ldl_recept_a=PD(50.0=25.7),PF0009014=TSP_1=WD(100=65.7)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGCACTTGTCAATCTGACCA
R:
GTCGGCTCATGATTCCCGATC
Band lengths:
249-350
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]