DreEX0022891 @ danRer10
Exon Skipping
Gene
ENSDARG00000078322 | col12a1a
Description
collagen, type XII, alpha 1a [Source:ZFIN;Acc:ZDB-GENE-090728-1]
Coordinates
chr17:49816679-49878097:-
Coord C1 exon
chr17:49877992-49878097
Coord A exon
chr17:49835351-49835620
Coord C2 exon
chr17:49816679-49816828
Length
270 bp
Sequences
Splice sites
3' ss Seq
TTTCTCTCTCAATCATCCAGAAC
3' ss Score
8.15
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
Exon sequences
Seq C1 exon
ATTAAGTAATGAGCTGCTGACTGTGTGTGTGTAAACATGAAGATCAGGTTGTCTTTGGCCGCTGCTGCGCTCTTGACTCTAGTACTCAGTTCAGTAGAGGCTCAAG
Seq A exon
AACTTGGTTCACCTTCGAATCTGGTAACTTCAGACGTCACTGAGAACAGTTTTGTAGCATCCTGGACCGCCGCCCCTGGAAACGTCCGTCTTTATCGGGTCACCTGGAAATCCCTCTTTTCAGAGGAAGCTGGCGAGAAGACTGTCCCCGGGGACGTAACCACCACTGTTCTGGACGGGCTGACACCAGAGACCCGCTACAAGGTTTCTGTCTACGCTGTCTACAGCCGTGCGGAGGGGGCGCCACTGCACGGAGAGGAGACCACAGATG
Seq C2 exon
ATGCCCAGTGTAAAACCACGGCCCAAGCGGATATCGTCCTGCTTGTTGATGGATCTTGGAGCATTGGTCGCCTGAACTTCAAGACCATACGCAATTTCATTGCTCGCATGGTGGGAGTCTTCGACATCGGCCCCGATCGTGTCCAGATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078322_MULTIEX1-12/15=C1-C2
Average complexity
C3
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.308 C2=0.039
Domain overlap (PFAM):
C1:
NO
A:
PF0004116=fn3=WD(100=87.9)
C2:
PF0009223=VWA=PU(23.1=78.4)
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:
AGTAATGAGCTGCTGACTGTGTG
R:
CAATCTGGACACGATCGGGG
Band lengths:
252-522
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]