BtaEX6047788 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000047998 | COL5A1
Description
collagen, type V, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2209]
Coordinates
chr11:106873459-106874806:-
Coord C1 exon
chr11:106874753-106874806
Coord A exon
chr11:106873895-106873930
Coord C2 exon
chr11:106873459-106873512
Length
36 bp
Sequences
Splice sites
3' ss Seq
CGCCCTGCCTCTCTCCACAGGGG
3' ss Score
13.63
5' ss Seq
TCGGTAAGT
5' ss Score
11.78
Exon sequences
Seq C1 exon
GGTATCACCGGTCCTTCCGGCCCGATTGGCCCCCCGGGTCCCCCCGGCCTGCCG
Seq A exon
GGGCCCCCTGGTCCAAAAGGCGCTAAGGGCTCCTCG
Seq C2 exon
GGTCCCACTGGCCCGAAGGGTGAGGCAGGCCAGCCAGGACCCCCTGGCCCACCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000047998-'69-73,'69-72,70-73=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(22.4=100),PF0139113=Collagen=PU(28.6=88.9)
A:
PF0139113=Collagen=PD(3.9=25.0),PF0139113=Collagen=FE(19.6=100)
C2:
PF0139113=Collagen=FE(30.4=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:
GTCCTTCCGGCCCGATTG
R:
CTGGCCTGCCTCACCCTTC
Band lengths:
77-113
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]