DreEX6056241 @ danRer10
Exon Skipping
Gene
ENSDARG00000078322 | col12a1a
Description
collagen, type XII, alpha 1a [Source:ZFIN;Acc:ZDB-GENE-090728-1]
Coordinates
chr17:49811844-49816828:-
Coord C1 exon
chr17:49816679-49816828
Coord A exon
chr17:49815588-49815707
Coord C2 exon
chr17:49811844-49812008
Length
120 bp
Sequences
Splice sites
3' ss Seq
ATATGTTTGGGGTTTTTTAGGTC
3' ss Score
8.9
5' ss Seq
CCGGTACCT
5' ss Score
5.7
Exon sequences
Seq C1 exon
ATGCCCAGTGTAAAACCACGGCCCAAGCGGATATCGTCCTGCTTGTTGATGGATCTTGGAGCATTGGTCGCCTGAACTTCAAGACCATACGCAATTTCATTGCTCGCATGGTGGGAGTCTTCGACATCGGCCCCGATCGTGTCCAGATTG
Seq A exon
GTCTGGCACAGTACAGCGGAGACCCGAAGACTGAGTGGCATCTCAATGCTCACAGAACCAGGACTCAGCTGCTGGATGCGGTGGCCAATCTACCCTACAAAGGAGGAAACACTCTCACCG
Seq C2 exon
GCCTTGCTTTGAATTACATCCTTCAGAATAACTTCAAGCCTAACGTTGGCATGCGTCCAAACTCCAGAAAGATCGGCGTCCTGGTCACTGATGGCAAGTCCCAAGACGACATTGTGGCGAACTCACAGAACCTGCGGGACCAAGGGATTGAACTGTACGCCATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078322-'20-20,'20-19,21-20=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.039 A=0.098 C2=0.089
Domain overlap (PFAM):
C1:
PF0009223=VWA=PU(23.1=78.4)
A:
PF0009223=VWA=FE(23.1=100)
C2:
PF0009223=VWA=FE(31.8=100)
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:
AGTGTAAAACCACGGCCCAAG
R:
CTTGCCATCAGTGACCAGGAC
Band lengths:
242-362
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]