DreEX0022877 @ danRer10
Exon Skipping
Gene
ENSDARG00000078322 | col12a1a
Description
collagen, type XII, alpha 1a [Source:ZFIN;Acc:ZDB-GENE-090728-1]
Coordinates
chr17:49866237-49878097:-
Coord C1 exon
chr17:49877992-49878097
Coord A exon
chr17:49866671-49866787
Coord C2 exon
chr17:49866237-49866377
Length
117 bp
Sequences
Splice sites
3' ss Seq
TGTTTACCTCTTGTTTGCAGTGG
3' ss Score
7.03
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
Exon sequences
Seq C1 exon
ATTAAGTAATGAGCTGCTGACTGTGTGTGTGTAAACATGAAGATCAGGTTGTCTTTGGCCGCTGCTGCGCTCTTGACTCTAGTACTCAGTTCAGTAGAGGCTCAAG
Seq A exon
TGGAGCCTCCGTCAGACTTAAAATTTAAAATCCTGAATGAAAACACAGTGCAAATGTCATGGAGGAAGCCCTCGTCTCAGATACAGGGCTACAGAATACAGGTCACGTCAGATACAG
Seq C2 exon
ATGATTCTAAAGAATTGAGTCTTCCTGCCTCGTCCACAAGCACATCAATTACAGATCTAACTCCAGATGTAGACTATTCAGTGTCAATCAATTCATATGATGGTGCTGAAGAAAGTATCCCTATCCTTGGACAAATCACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078322-'1-2,'1-1,4-2
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.075 C2=0.188
Domain overlap (PFAM):
C1:
NO
A:
PF0004116=fn3=PU(48.1=95.0)
C2:
PF0004116=fn3=PD(50.6=83.3)
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:
TGTGATTTGTCCAAGGATAGGGA
Band lengths:
242-359
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]