DreEX0022921 @ danRer10
Exon Skipping
Gene
ENSDARG00000019601 | col12a1b
Description
collagen, type XII, alpha 1b [Source:ZFIN;Acc:ZDB-GENE-120215-116]
Coordinates
chr20:49801479-49878670:-
Coord C1 exon
chr20:49878567-49878670
Coord A exon
chr20:49814897-49815163
Coord C2 exon
chr20:49801479-49801628
Length
267 bp
Sequences
Splice sites
3' ss Seq
TCGTCTCTGTCTGTTTGTAGCCT
3' ss Score
8.95
5' ss Seq
CACGTACGT
5' ss Score
8.98
Exon sequences
Seq C1 exon
ATTTGATTGATGTTCTGCTGATACCGGGGTGAAGATGTCGGTCAGGCATTTGGCAGCGGTGGCTCTCTTTACACTCGCAGCACTGACATCAGTGAGAGCCCAAG
Seq A exon
CCTCTGCATCTGCCAAGGCTTTACTGGTGTCTGATGAAACCGAACGAACCATGCGGGTGATATGGAAAGCTGCTCCTGGTCCTGTGGTCAACTACAGACTAACGTACATCCCTCAGACCGGCGGTAAAGAGATGACAATGAAAATTCCTGCCAACGTCACCTACACCATGCTGAGGAAACTGCAGCACACCACCACCTACTTCATCACCGTGCATCCTATATACAAACGGGGAGAAGGAAAAGCAAGGCAAGGAGTAGGAACCACAC
Seq C2 exon
GTAATGAGTGTAAAACTTCAGCCAAGGCTGATATTGTCCTGCTGGTGGACGGGTCCTGGAGTATTGGCCGTCTGAACTTCAAAACCATTCGTGCTTTTATTGGGCGCATGGTGGGCGTCTTTGACATCGGACCTGACAAGGTTCAAATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000019601_MULTIEX2-13/15=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=0.153 C2=0.039
Domain overlap (PFAM):
C1:
NO
A:
PF0004116=fn3=WD(100=88.9)
C2:
PF0009223=VWA=PU(23.1=78.4)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTGATTGATGTTCTGCTGATACCG
R:
CCTTGTCAGGTCCGATGTCAA
Band lengths:
244-511
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]