BtaEX6048054 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000020056 | COL12A1
Description
collagen, type XII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2188]
Coordinates
chr9:14875075-14879644:-
Coord C1 exon
chr9:14879573-14879644
Coord A exon
chr9:14875251-14875286
Coord C2 exon
chr9:14875075-14875141
Length
36 bp
Sequences
Splice sites
3' ss Seq
TTGAAATTCCTCTATTTCAGGGT
3' ss Score
9.35
5' ss Seq
AGAGTATGT
5' ss Score
5.66
Exon sequences
Seq C1 exon
GGAAGTCCAGGCTCTCCAGGAGTCACAGGACCAAGTGGGAAACCAGGAAAGCCCGGAGATCACGGCAGACCA
Seq A exon
GGTCCATCAGGACTGAAAGGAGAGAAAGGCGACAGA
Seq C2 exon
GGAGACATCGCTTCCCAGAACATGATGCGAGCAGTTGCAAGACAAGTCTGTGAACAATTGATAAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020056-'60-66,'60-65,62-66=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(37.7=100)
A:
PF0139113=Collagen=FE(18.0=100)
C2:
PF0139113=Collagen=PD(9.8=26.1)
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:
GAAGTCCAGGCTCTCCAGGA
R:
TCTTGCAACTGCTCGCATCAT
Band lengths:
113-149
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]