DreEX6056253 @ danRer10
Exon Skipping
Gene
ENSDARG00000078322 | col12a1a
Description
collagen, type XII, alpha 1a [Source:ZFIN;Acc:ZDB-GENE-090728-1]
Coordinates
chr17:49773819-49775171:-
Coord C1 exon
chr17:49775042-49775171
Coord A exon
chr17:49774395-49774534
Coord C2 exon
chr17:49773819-49773948
Length
140 bp
Sequences
Splice sites
3' ss Seq
GTGTGTGTGTGTTCCCATAGTGC
3' ss Score
9.99
5' ss Seq
ATGGTACGT
5' ss Score
9.89
Exon sequences
Seq C1 exon
ACGCAGGTCGGAGGAAAGAAAAACACAGTGATCCTGCAGAAACTGACTCCAGACACTCCTTACTCCATCACTGTTGCTGCGGTCTACGCCAGCGGAGAGGCCAGAGACATTTCTGGCCAAGGAAAGACAT
Seq A exon
TGCCGCTGGGCAGTGTCAGGAATCTTCAGGTCACTGACCCCACAGTTAGCACTCTGAATGTGCGCTGGGAGCCGGCGGAGGGAAGCGTTCGCCAGTACAGGATCTACTACCAGCCCGTCGCAGGGGGCGCAGAGGACATG
Seq C2 exon
GTCCAGGTTCCTGGAAGCACCACCAGCACCGTTCTGAAGAACCTGCAATCTGACACTCAGTACAGAGTGACGGTGGTGCCAGTCTACGCTCCTGGAGAGGGCAAGCGCATGTCGGAGACCGGAAAAACAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078322-'34-36,'34-35,35-36=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.432 A=0.404 C2=0.523
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(43.8=79.5)
A:
PF0004116=fn3=PU(53.1=91.5)
C2:
PF0004116=fn3=PD(44.4=81.8)
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:
CGCAGGTCGGAGGAAAGAAAA
R:
GGTCTCCGACATGCGCTTG
Band lengths:
249-389
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]