BtaEX6047789 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000047998 | COL5A1
Description
collagen, type V, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2209]
Coordinates
chr11:106872754-106873930:-
Coord C1 exon
chr11:106873895-106873930
Coord A exon
chr11:106873459-106873512
Coord C2 exon
chr11:106872754-106873009
Length
54 bp
Sequences
Splice sites
3' ss Seq
TCTCTTTTCTTTCTCCCCAGGGT
3' ss Score
12.97
5' ss Seq
CCAGTGAGT
5' ss Score
8.28
Exon sequences
Seq C1 exon
GGGCCCCCTGGTCCAAAAGGCGCTAAGGGCTCCTCG
Seq A exon
GGTCCCACTGGCCCGAAGGGTGAGGCAGGCCAGCCAGGACCCCCTGGCCCACCA
Seq C2 exon
GGCCCCCCAGGCGAGGTCATCCAGCCCCTGCCGATCCAGGCATCCAGGACCCGGCGGAATATCGATGCCAGCCAGCTGATGGACGACGCAGAGGGCGAGCAGTACATGGACTATGCGGATGGCATGGAGGAGATCTTCGGCTCGCTCAACTCCCTGAAGCTGGAGATCGAGCAGATGAAGCGGCCGCTGGGCACACCGCAGAACCCCGCACGCACCTGCAAAGACCTCCAGCTCTGCCACCCCGACTTCCCTGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000047998-'70-74,'70-73,71-74=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=0.791
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(3.9=25.0),PF0139113=Collagen=FE(19.6=100)
A:
PF0139113=Collagen=FE(30.4=100)
C2:
PF0139113=Collagen=PD(14.3=9.3),PF0141013=COLFI=PU(12.7=31.4)

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:
CTGGTCCAAAAGGCGCTAAGG
R:
TAGTCCATGTACTGCTCGCCC
Band lengths:
142-196
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]