BtaEX6047772 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000047998 | COL5A1
Description
collagen, type V, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2209]
Coordinates
chr11:106890424-106892026:-
Coord C1 exon
chr11:106891937-106892026
Coord A exon
chr11:106891792-106891845
Coord C2 exon
chr11:106890424-106890531
Length
54 bp
Sequences
Splice sites
3' ss Seq
CACACCCCGTTGCTTTGCAGGGG
3' ss Score
8.54
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
Exon sequences
Seq C1 exon
GGTGACCCAGGCCCCGCCGGCCTTCCTGGGAAAGACGGTCCCCCCGGGCTGCGAGGCTTCCCTGGAGACCGAGGCCTTCCTGGTCCAGTG
Seq A exon
GGGGCGCTTGGACTGAAAGGCAGTGAAGGCCCCCCCGGCCCACCAGGCCCCGCG
Seq C2 exon
GGATCTCCAGGCGAGAGAGGTCCAGCCGGTGCTGCTGGGCCCATTGGAATTCCAGGGAGACCCGGGCCCCAGGGGCCCCCTGGGCCAGCTGGAGAGAAAGGCGCTCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000047998-'48-53,'48-52,49-53=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(21.4=50.0),PF0139113=Collagen=FE(40.3=100)
A:
PF0139113=Collagen=FE(23.6=100)
C2:
PF0139113=Collagen=PD(23.6=47.2),PF0139113=Collagen=PU(45.8=91.7)
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:
CCTTCCTGGGAAAGACGGTCC
R:
CGGGTCTCCCTGGAATTCCAA
Band lengths:
134-188
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]