BtaEX6047762 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000047998 | COL5A1
Description
collagen, type V, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2209]
Coordinates
chr11:106903517-106906510:-
Coord C1 exon
chr11:106906430-106906510
Coord A exon
chr11:106905787-106905840
Coord C2 exon
chr11:106903517-106903570
Length
54 bp
Sequences
Splice sites
3' ss Seq
GCACCTCTTTCTCTCCGCAGGGC
3' ss Score
12.67
5' ss Seq
AAGGTAACG
5' ss Score
10.19
Exon sequences
Seq C1 exon
GGGGAGGACGGTCCTGAAGGTCCCAAGGGGCGAGGCGGTCCGAACGGCGACCCCGGTCCTCTGGGACCCCCTGGGGAGAAG
Seq A exon
GGCAAACTCGGAGTCCCAGGACTGCCAGGCTACCCAGGAAGACAGGGGCCAAAG
Seq C2 exon
GGTTCTATCGGATTTCCTGGATTTCCCGGCGCCAACGGAGAAAAGGGCGGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000047998-'37-43,'37-42,38-43=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(0.1=0.0),PF0139113=Collagen=FE(40.0=100)
A:
PF0139113=Collagen=FE(26.2=100),PF0139113=Collagen=PU(7.1=27.8)
C2:
PF0139113=Collagen=PD(21.5=77.8),PF0139113=Collagen=FE(24.3=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:
GACGGTCCTGAAGGTCCCAAG
R:
CCGCCCTTTTCTCCGTTGG
Band lengths:
125-179
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]