GgaEX6015370 @ galGal4
Exon Skipping
Gene
ENSGALG00000002546 | COL5A1
Description
collagen alpha-1(V) chain precursor [Source:RefSeq peptide;Acc:NP_990121]
Coordinates
chr17:7551839-7553298:+
Coord C1 exon
chr17:7551839-7551874
Coord A exon
chr17:7552674-7552727
Coord C2 exon
chr17:7553040-7553298
Length
54 bp
Sequences
Splice sites
3' ss Seq
TTCCCTTTTTTTCCACCTAGGGT
3' ss Score
10.9
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
Exon sequences
Seq C1 exon
GGTCCACCTGGTCCCAAAGGTGCTAAAGGATCATCA
Seq A exon
GGTCCAACGGGTCCAAAGGGTGAATCGGGTCTTCCTGGGCCTCCAGGGCCTCCT
Seq C2 exon
GGTCCTCCTGGAGAAGTCATCCAGCCTCTGCCCATCCAGTCTTCCAAGAGGACCAGGCGAAACATCGACGCCAGCCAGCTGGTGGACGATGGAAACGCTGACAACTACATGGACTATGCAGATGGCATGGAGGAAATCTTTGGCTCACTGAATTCCTTGAAACTGGAAATTGAACAAATGAAGCATCCATTGGGCACTCAACATAACCCAGCTCGTACCTGCAAGGATCTCCAGCTCTGTCACCCTGATTTCCCAGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002546-'74-70,'74-68,76-70=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=0.759
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(17.5=100)
A:
PF0139113=Collagen=FE(27.0=100)
C2:
PF0139113=Collagen=PD(12.7=9.2),PF0141013=COLFI=PU(12.7=31.0)
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:
ACCTGGTCCCAAAGGTGCTAA
R:
TTGTCAGCGTTTCCATCGTCC
Band lengths:
135-189
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]