DreEX6056256 @ danRer10
Exon Skipping
Gene
ENSDARG00000078322 | col12a1a
Description
collagen, type XII, alpha 1a [Source:ZFIN;Acc:ZDB-GENE-090728-1]
Coordinates
chr17:49749872-49752015:-
Coord C1 exon
chr17:49751896-49752015
Coord A exon
chr17:49750074-49750220
Coord C2 exon
chr17:49749872-49749988
Length
147 bp
Sequences
Splice sites
3' ss Seq
TTGTTTATCTGTTACTCCAGGCA
3' ss Score
6.77
5' ss Seq
CCCGTATGT
5' ss Score
5.55
Exon sequences
Seq C1 exon
TGGATCTCCTTGGGCCTCGTAACCTGCGTGTTTCAGACGAGTGGTACACACGTTTCCGAGTGTCCTGGGATCCTGCAGCCGCACGGGTGAATGGATATAAACTGGTCTATACACCAGTGG
Seq A exon
GCACAACCGACACCATGGAAGCCTTCGTTGGAGACGTGACTTCACACCACCTGAACAACCTCCAGCCTGGCACCACATACGACCTGAAGGTTTACGCTCAGTATGATGCGGGCTTGAGCGGCGCTCTGGTCGGACAGGGAACCACCC
Seq C2 exon
TGTATCTCAACGTGACCGACCTCACTTCCTACAACGTGGGCTACGACTCTTTCTGCATCAGATGGACTCCTCATCGAGCTGCCACCTCCTACAGACTCAAAGTCAACCCTTTCAACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078322-'43-44,'43-43,44-44=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.025
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(46.8=90.2)
A:
PF0004116=fn3=PD(51.9=82.0)
C2:
PF0004116=fn3=PU(45.7=92.5)
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:
GGATCTCCTTGGGCCTCGTAA
R:
GGTTGAAAGGGTTGACTTTGAGT
Band lengths:
236-383
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]