BtaEX6047784 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000047998 | COL5A1
Description
collagen, type V, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2209]
Coordinates
chr11:106876317-106876708:-
Coord C1 exon
chr11:106876601-106876708
Coord A exon
chr11:106876462-106876515
Coord C2 exon
chr11:106876317-106876370
Length
54 bp
Sequences
Splice sites
3' ss Seq
CAGGTTCGACTGTGTTTCAGGGT
3' ss Score
7.14
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
Exon sequences
Seq C1 exon
GGAGAAGCCGGCTTGGAAGGCCCTCCTGGGAAGACTGGCCCCATTGGCCCCCAGGGGGCCCCCGGGAAGCCGGGGCCCGACGGCCTTCGAGGGATCCCGGGCCCAGTG
Seq A exon
GGTGAACAAGGTCTCCCCGGAGCCCCGGGCCCTGATGGCCCCCCAGGACCCATG
Seq C2 exon
GGCCCCCCAGGACTCCCCGGCCTCAAAGGAGACTCTGGACCCAAAGGAGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000047998-'65-69,'65-68,66-69=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=PD(44.2=94.4),PF0139113=Collagen=PU(33.8=63.9)
A:
PF0139113=Collagen=FE(25.0=100)
C2:
PF0139113=Collagen=FE(25.0=100),PF0139113=Collagen=PU(22.4=94.4)
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:
GAGAAGCCGGCTTGGAAGG
R:
TCCAGAGTCTCCTTTGAGGCC
Band lengths:
146-200
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]