BtaEX0009548 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000020056 | COL12A1
Description
collagen, type XII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2188]
Coordinates
chr9:14939522-14983763:-
Coord C1 exon
chr9:14983691-14983763
Coord A exon
chr9:14949682-14949954
Coord C2 exon
chr9:14939522-14939671
Length
273 bp
Sequences
Splice sites
3' ss Seq
CCCTTTCATTTCTTTTCTAGAGC
3' ss Score
10.96
5' ss Seq
AATGTAGGT
5' ss Score
5.12
Exon sequences
Seq C1 exon
ATGCGGATCAGGCTTCCCCCAGCGCTCGCCGCCCTGGGCGCGGCCCTGCTCCTGTCTTCCATCGAGGCAGAAG
Seq A exon
AGCGCGGTTCACCTGGAGATTTGATTACTAAAGATATCACGGACACATCGATTGGGGCTTATTGGACGTCAGCTCCAGGAATGGTTCGCGGTTACAGGGTCTCCTGGCAATCACTTTATGATGATATAGAGACTGGAGAAAAGAGTCTTCCTGCAGATGTAATTCATACTGTGATAGAAAACCTGCAGCCAGAGACCAAGTACAGAGTTTCCATATTTGCAACTTACAGTAGTGGAGAAGGGGAACCCTTGAGTGGAGAAGCCATGACTGAAT
Seq C2 exon
GGATGGAGTGTCTCACCCGGGCTGAAGCAGACATCGTGCTGCTGGTGGATGGATCGTGGAGCATCGGCCGGGCGAACTTTAGAACCGTCAGGAGCTTCATTTCTCGTATTGTGGAAGTCTTTGAGATTGGCCCCAAAAGAGTACAGATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020056_MULTIEX1-12/15=C1-C2
Average complexity
C3
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.283 C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
PF0004116=fn3=WD(100=89.1)
C2:
PF0009223=VWA=PU(23.1=78.4)
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:
ATGCGGATCAGGCTTCCCC
R:
TCTGTACTCTTTTGGGGCCAA
Band lengths:
220-493
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development