DreEX0022917 @ 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
chr20:49869021-49869137
Coord C2 exon
chr20:49801479-49801628
Length
117 bp
Sequences
Splice sites
3' ss Seq
TTCGCCTTCTCTTTCCACAGTAA
3' ss Score
9.55
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
Exon sequences
Seq C1 exon
ATTTGATTGATGTTCTGCTGATACCGGGGTGAAGATGTCGGTCAGGCATTTGGCAGCGGTGGCTCTCTTTACACTCGCAGCACTGACATCAGTGAGAGCCCAAG
Seq A exon
TAATGCCTCCGTCAGACTTGAGGTTTAAGATATTAAATGAAAACACGGTGCAAATGACATGGAAGCAACCGCTGTCAAGGGTTGATGGCTTCAGAGTACAAGTGACGTCAGATACAG
Seq C2 exon
GTAATGAGTGTAAAACTTCAGCCAAGGCTGATATTGTCCTGCTGGTGGACGGGTCCTGGAGTATTGGCCGTCTGAACTTCAAAACCATTCGTGCTTTTATTGGGCGCATGGTGGGCGTCTTTGACATCGGACCTGACAAGGTTCAAATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000019601_MULTIEX2-1/15=C1-C2
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.025 C2=0.039
Domain overlap (PFAM):
C1:
NO
A:
PF0004116=fn3=PU(47.5=95.0)
C2:
PF0009223=VWA=PU(23.1=78.4)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATTGATGTTCTGCTGATACCGG
R:
CCTTGTCAGGTCCGATGTCAA
Band lengths:
242-359
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]