BtaEX6047766 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000047998 | COL5A1
Description
collagen, type V, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2209]
Coordinates
chr11:106898470-106900039:-
Coord C1 exon
chr11:106899986-106900039
Coord A exon
chr11:106899007-106899051
Coord C2 exon
chr11:106898470-106898523
Length
45 bp
Sequences
Splice sites
3' ss Seq
CTCTTTCCCTGCCTTCCCAGGGC
3' ss Score
10.62
5' ss Seq
CGGGTAAGC
5' ss Score
9.14
Exon sequences
Seq C1 exon
GGCCCACGAGGTGAAAGAGGCCCACGGGGCATCACCGGCAAGCCTGGCCCCAAG
Seq A exon
GGCAACTCTGGAGGCGATGGCCCGGCCGGCCCTCCAGGTGAACGG
Seq C2 exon
GGACCCAACGGACCCCAAGGACCCACGGGGTTCCCTGGACCAAAGGGCCCCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000047998-'41-47,'41-46,42-47=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(24.3=100),PF0139113=Collagen=PU(6.9=27.8)
A:
PF0139113=Collagen=PD(17.1=80.0),PF0139113=Collagen=FE(19.4=100)
C2:
PF0139113=Collagen=FE(23.6=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:
CCCACGAGGTGAAAGAGGC
R:
GGGTCCTTGGGGTCCGTT
Band lengths:
76-121
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]