BtaEX6047763 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000047998 | COL5A1
Description
collagen, type V, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2209]
Coordinates
chr11:106900166-106905840:-
Coord C1 exon
chr11:106905787-106905840
Coord A exon
chr11:106903517-106903570
Coord C2 exon
chr11:106900166-106900210
Length
54 bp
Sequences
Splice sites
3' ss Seq
CCTCATGAACTCTCTTGCAGGGT
3' ss Score
8.52
5' ss Seq
AGGGTAAGG
5' ss Score
9.16
Exon sequences
Seq C1 exon
GGCAAACTCGGAGTCCCAGGACTGCCAGGCTACCCAGGAAGACAGGGGCCAAAG
Seq A exon
GGTTCTATCGGATTTCCTGGATTTCCCGGCGCCAACGGAGAAAAGGGCGGCAGG
Seq C2 exon
GGCACCCCTGGGAAGCCGGGACCACGGGGGCAGCGAGGCCCGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000047998-'38-44,'38-43,39-44=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(26.2=100),PF0139113=Collagen=PU(7.1=27.8)
A:
PF0139113=Collagen=PD(21.5=77.8),PF0139113=Collagen=FE(24.3=100)
C2:
PF0139113=Collagen=FE(20.0=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAAACTCGGAGTCCCAGGA
R:
GTGGTCCCGGCTTCCCAG
Band lengths:
78-132
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]