GgaEX1016850 @ galGal4
Exon Skipping
Gene
ENSGALG00000002546 | COL5A1
Description
collagen alpha-1(V) chain precursor [Source:RefSeq peptide;Acc:NP_990121]
Coordinates
chr17:7525961-7546582:+
Coord C1 exon
chr17:7525961-7526005
Coord A exon
chr17:7533731-7533775
Coord C2 exon
chr17:7546475-7546582
Length
45 bp
Sequences
Splice sites
3' ss Seq
GTGTTCCTTTTCCTTTGCAGGGG
3' ss Score
12.82
5' ss Seq
ACGGTAACA
5' ss Score
6.72
Exon sequences
Seq C1 exon
GGAGCGGATGGTGTTCGTGGGTTGAAGGGCACCAAAGGTGAAAAG
Seq A exon
GGGACACCTGGCAAACCAGGTCCAAGGGGGCAACGCGGTCCAACG
Seq C2 exon
GGTCCAAAAGGTGAAAGAGGTGAAAAGGGTGAAGCAGGTCCCTCTGGTGCCGCTGGTCCACCTGGCCCTAAAGGTCCACCAGGTGATGATGGTCCCAAAGGCAGCCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002546_MULTIEX2-5/23=C1-22
Average complexity
C3
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=NA A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
NA
A:
PF0139113=Collagen=PD(18.3=86.7),PF0139113=Collagen=FE(17.5=100)
C2:
PF0139113=Collagen=PD(16.0=41.7),PF0139113=Collagen=FE(38.0=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:
ATGGTGTTCGTGGGTTGAAGG
R:
GCCTTTGGGACCATCATCACC
Band lengths:
140-185
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]