BtaEX6047779 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000047998 | COL5A1
Description
collagen, type V, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2209]
Coordinates
chr11:106882021-106883556:-
Coord C1 exon
chr11:106883503-106883556
Coord A exon
chr11:106883299-106883406
Coord C2 exon
chr11:106882021-106882074
Length
108 bp
Sequences
Splice sites
3' ss Seq
CAACGGCTCCCCTTCTCCAGGGC
3' ss Score
8.65
5' ss Seq
AAGGTGACG
5' ss Score
7
Exon sequences
Seq C1 exon
GGTCTGCCGGGACCTCCCGGAGAGAAGGGCGAGACAGGCGACGTGGGTCAGATG
Seq A exon
GGCCCGCCAGGTCCCCCCGGACCCCGAGGACCCTCCGGAGCTCCAGGTGCAGACGGGCCACAAGGACCCCCCGGCGGAATAGGCAACCCTGGAGCCGTGGGAGAGAAG
Seq C2 exon
GGTGAACCCGGCGAAGCAGGAGAGCCTGGCCTTCCCGGCGAAGGGGGCCCCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000047998-'55-61,'55-59,56-61=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(25.4=100),PF0139113=Collagen=PU(7.7=27.8)
A:
PF0139113=Collagen=PD(0.1=0.0),PF0139113=Collagen=FE(53.8=100)
C2:
PF0139113=Collagen=FE(26.2=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:
GGACCTCCCGGAGAGAAGG
R:
CGGGAAGGCCAGGCTCTC
Band lengths:
82-190
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]