GgaEX1016844 @ 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
chr17:7545577-7545684
Coord C2 exon
chr17:7546475-7546582
Length
108 bp
Sequences
Splice sites
3' ss Seq
ATGTCTCCTCTTTCCCTCAGGGT
3' ss Score
11.71
5' ss Seq
AAGGTAAAG
5' ss Score
9.06
Exon sequences
Seq C1 exon
GGAGCGGATGGTGTTCGTGGGTTGAAGGGCACCAAAGGTGAAAAG
Seq A exon
GGTCCACCAGGTCCACCTGGGCCCAGAGGCCCCTCCGGCCCACCAGGAGCAGACGGACCCCAAGGCCCTGCTGGGGGAATAGGAAATCCTGGTGCAGTAGGAGAGAAG
Seq C2 exon
GGTCCAAAAGGTGAAAGAGGTGAAAAGGGTGAAGCAGGTCCCTCTGGTGCCGCTGGTCCACCTGGCCCTAAAGGTCCACCAGGTGATGATGGTCCCAAAGGCAGCCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002546_MULTIEX2-20/23=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(25.8=44.4),PF0139113=Collagen=FE(37.2=100),PF0139113=Collagen=PU(2.2=5.6)
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:
CGGATGGTGTTCGTGGGTTG
R:
GCTGCCTTTGGGACCATCATC
Band lengths:
146-254
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]