GgaEX1016827 @ galGal4
Exon Skipping
Gene
ENSGALG00000002546 | COL5A1
Description
collagen alpha-1(V) chain precursor [Source:RefSeq peptide;Acc:NP_990121]
Coordinates
chr17:7549765-7550522:+
Coord C1 exon
chr17:7549765-7549872
Coord A exon
chr17:7550318-7550371
Coord C2 exon
chr17:7550469-7550522
Length
54 bp
Sequences
Splice sites
3' ss Seq
AGGACTGCACTGTTTTACAGGGT
3' ss Score
5.79
5' ss Seq
TTGGTATGT
5' ss Score
7.12
Exon sequences
Seq C1 exon
GGTGAAGCTGGTTTGGAAGGGCCTCCTGGGAAGACAGGCCCAATCGGTCCCCAGGGTGCTCCGGGGAAGCCCGGCCCTGATGGCCTCCGGGGAATTCCTGGTCCAGTT
Seq A exon
GGTGAACAAGGCCTTCCAGGATCCCCTGGCCCAGATGGCCCCCCAGGCCCATTG
Seq C2 exon
GGCCCACCTGGTTTGCCTGGCCTCAAAGGAGACTCTGGTCCTAAAGGAGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002546-'69-64,'69-63,70-64
Average complexity
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=FE(52.2=100),PF0139113=Collagen=PU(21.9=63.9)
A:
PF0139113=Collagen=FE(25.4=100),PF0139113=Collagen=FE(16.2=100)
C2:
PF0139113=Collagen=PD(9.0=33.3),PF0139113=Collagen=FE(16.2=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:
GGTGAAGCTGGTTTGGAAGGG
R:
AGAGTCTCCTTTGAGGCCAGG
Band lengths:
144-198
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]