BtaEX0009716 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000047998 | COL5A1
Description
collagen, type V, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2209]
Coordinates
chr11:106856171-106865971:-
Coord C1 exon
chr11:106865903-106865971
Coord A exon
chr11:106862054-106862287
Coord C2 exon
chr11:106856171-106856631
Length
234 bp
Sequences
Splice sites
3' ss Seq
CCCGTCCTGTCGCCCTGCAGCTC
3' ss Score
11.89
5' ss Seq
GCCGTGAGT
5' ss Score
8.56
Exon sequences
Seq C1 exon
GCCAGAATCACTTCTTGGCCCAAAGAAAACCCGGGTTCCTGGTTCAGTGAATTCAAGCGTGGCAAACTG
Seq A exon
CTCTCCTATGTGGACGCCGAGGGCAACCCCGTGGGCGTCGTCCAGATGACCTTCCTGCGGCTGCTCAGCGCCTCCGCCCACCAGAACATCACCTACAACTGCTACCAGTCGGTGGCCTGGCAGGACGCCGCCACGGGCAGCTATGACAAGGCCATGCGCTTCCTGGGCTCCAACGACGAGGAGATGTCATATGACAACAGCCCCTACATCCGCGCCCTGGTGGACGGCTGCGCC
Seq C2 exon
ACGAAGAAAGGGTATCAGAAGACGGTTCTGGAGATCGACACGCCCAAGGTGGAGCAGGTGCCCATCGTCGACATCATGTTCAACGACTTCGGTGAAGCGTCACAGAAATTTGGATTTGAAGTGGGGCCGGCTTGCTTCCTGGGCTAGGAGCCGCGAGCCCGGCCCCAAGAGCAACCTTGTGACCTCAGCGCGCCGCCTGCGGGCGTCCGGACAGTGAGGGCCCCTTGCCCTTCCCACGGCGCCGGGCCGCCCCGCACGAGAGCAAAGGGAAAGAGCCGCGTCCGCGCCCCCACCCCGGAGCCGAATCACATGACCTAGACGCCCCGCAGCCGCCTGCTTCCGGCAGCCCCGTCCCGGCCACGCCGCACTCCCTGGGAAGGGAGCGGGGCCCCCCCACCGAGCCCGTGGATGGTCTTCACGGAGAAGGGTAGGGCTGCCGTATTTGGAGATCAAGCCTTTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000047998-'74-81,'74-80,77-81
Average complexity
C1
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.130 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0141013=COLFI=FE(10.4=100)
A:
PF0141013=COLFI=FE(36.3=100)
C2:
PF0141013=COLFI=PD(21.2=91.8)
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:
TCAGTGAATTCAAGCGTGGCA
R:
TCTTTCCCTTTGCTCTCGTGC
Band lengths:
300-534
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development