DreEX6056264 @ danRer10
Exon Skipping
Gene
ENSDARG00000078322 | col12a1a
Description
collagen, type XII, alpha 1a [Source:ZFIN;Acc:ZDB-GENE-090728-1]
Coordinates
chr17:49717118-49729738:-
Coord C1 exon
chr17:49729596-49729738
Coord A exon
chr17:49729202-49729311
Coord C2 exon
chr17:49717118-49717276
Length
110 bp
Sequences
Splice sites
3' ss Seq
GAGTGTGTTTTGTTTTTCAGCCT
3' ss Score
7.99
5' ss Seq
AAGGTAAAG
5' ss Score
9.06
Exon sequences
Seq C1 exon
GGAAATCCATCCAGATGGTCTTCCTCCATCCTACACCCTCATCCTCCTCTTCCGTCTGCTCCCGGACACCGGCAAGGATGCGTTTGATTTATGGCAGATCTCAGATAAGAACAATAACCCTGAGGTCGGGCTCACCATTGACC
Seq A exon
CCTCCAGCAGAGTGATCTCCTTCTACAATAAAGACACTAGAGGGGAAATTCAGAAAGTCTCCTTTGATAACGACCACGTGAAGAAGATTTTCCACGGCAGTTTCCACAAG
Seq C2 exon
CTTCACATTTCTATTTCGCCGAAAAATGTCAAACTCAACATCGACTGCCAAGAGGTGGCTGAGAAACAGATCAAAGCAGCCAACAACGTCTCCACAGATGGCTACGAAGTCCTTGGAAAAATGACAAAGTCTGGCGGTTCAAAGAAGCAGTCGGCCACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078322-'54-55,'54-54,55-55=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=0.041 A=0.000 C2=0.321
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCCTCCTCTTCCGTCTGCTC
R:
CTGCTTCTTTGAACCGCCAGA
Band lengths:
253-363
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]