GgaEX6015368 @ galGal4
Exon Skipping
Gene
ENSGALG00000002546 | COL5A1
Description
collagen alpha-1(V) chain precursor [Source:RefSeq peptide;Acc:NP_990121]
Coordinates
chr17:7553040-7555039:+
Coord C1 exon
chr17:7553040-7553298
Coord A exon
chr17:7553665-7553777
Coord C2 exon
chr17:7554971-7555039
Length
113 bp
Sequences
Splice sites
3' ss Seq
CCTCCCTGTCCTGCATCCAGGTG
3' ss Score
10.45
5' ss Seq
GGAGTAAGT
5' ss Score
8.57
Exon sequences
Seq C1 exon
GGTCCTCCTGGAGAAGTCATCCAGCCTCTGCCCATCCAGTCTTCCAAGAGGACCAGGCGAAACATCGACGCCAGCCAGCTGGTGGACGATGGAAACGCTGACAACTACATGGACTATGCAGATGGCATGGAGGAAATCTTTGGCTCACTGAATTCCTTGAAACTGGAAATTGAACAAATGAAGCATCCATTGGGCACTCAACATAACCCAGCTCGTACCTGCAAGGATCTCCAGCTCTGTCACCCTGATTTCCCAGATG
Seq A exon
GTGAATACTGGGTGGATCCTAACCAAGGATGTTCCAGGGACTCTTTCAAAGTGTACTGTAATTTCACAGCTGGTGGAGAGACTTGCATCTTCCCTGATAAGAAGTCTGAAGGA
Seq C2 exon
GCTAGAATTACTTCTTGGCCAAAGGAAAACCCAGGCTCCTGGTTCAGTGAATTCAAGCGCGGTAAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002546-'77-72,'77-71,79-72=AN
Average complexity
A_C1
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.759 A=0.026 C2=0.130
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(12.7=9.2),PF0141013=COLFI=PU(12.7=31.0)
A:
PF0141013=COLFI=FE(17.5=100)
C2:
PF0141013=COLFI=FE(10.4=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCTGGTGGACGATGGAAAC
R:
ACCGCGCTTGAATTCACTGAA
Band lengths:
247-360
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]