BtaEX6047771 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000047998 | COL5A1
Description
collagen, type V, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2209]
Coordinates
chr11:106891792-106893772:-
Coord C1 exon
chr11:106893665-106893772
Coord A exon
chr11:106891937-106892026
Coord C2 exon
chr11:106891792-106891845
Length
90 bp
Sequences
Splice sites
3' ss Seq
ACCTGTGGCCCTGATTCCAGGGT
3' ss Score
6.58
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
Exon sequences
Seq C1 exon
GGTCCCACCGGGGAAACTGGTCCCATGGGCGAGCGTGGCCACCCTGGGCCCCCAGGCCCCCCCGGTGAACAGGGGCTCCCGGGCCTGGCCGGGAAAGAAGGGACGAAG
Seq A exon
GGTGACCCAGGCCCCGCCGGCCTTCCTGGGAAAGACGGTCCCCCCGGGCTGCGAGGCTTCCCTGGAGACCGAGGCCTTCCTGGTCCAGTG
Seq C2 exon
GGGGCGCTTGGACTGAAAGGCAGTGAAGGCCCCCCCGGCCCACCAGGCCCCGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000047998-'47-52,'47-51,48-52=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(50.0=100),PF0139113=Collagen=PU(6.9=13.9)
A:
PF0139113=Collagen=PD(21.4=50.0),PF0139113=Collagen=FE(40.3=100)
C2:
PF0139113=Collagen=FE(23.6=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:
GAAACTGGTCCCATGGGCG
R:
GGCCTTCACTGCCTTTCAG
Band lengths:
127-217
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]