BtaEX6047778 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000047998 | COL5A1
Description
collagen, type V, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2209]
Coordinates
chr11:106883299-106885031:-
Coord C1 exon
chr11:106884924-106885031
Coord A exon
chr11:106883503-106883556
Coord C2 exon
chr11:106883299-106883406
Length
54 bp
Sequences
Splice sites
3' ss Seq
TGACGACCTCCTGTTCTCAGGGT
3' ss Score
9.03
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
Exon sequences
Seq C1 exon
GGAGCCGATGGCGAGCCGGGACCTCGGGGCCAGCAGGGCCTCTTTGGGCAGAAAGGCGACGAGGGTCCGAGAGGCTTCCCCGGGCCCCCGGGCCCCGTGGGGCTGCAG
Seq A exon
GGTCTGCCGGGACCTCCCGGAGAGAAGGGCGAGACAGGCGACGTGGGTCAGATG
Seq C2 exon
GGCCCGCCAGGTCCCCCCGGACCCCGAGGACCCTCCGGAGCTCCAGGTGCAGACGGGCCACAAGGACCCCCCGGCGGAATAGGCAACCCTGGAGCCGTGGGAGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000047998-'54-59,'54-58,55-59=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(16.2=33.3),PF0139113=Collagen=FE(52.2=100)
A:
PF0139113=Collagen=FE(25.4=100),PF0139113=Collagen=PU(7.7=27.8)
C2:
PF0139113=Collagen=PD(0.1=0.0),PF0139113=Collagen=FE(53.8=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:
CTCTTTGGGCAGAAAGGCGAC
R:
CTTGTGGCCCGTCTGCAC
Band lengths:
133-187
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]