GgaEX1016506 @ galGal4
Exon Skipping
Gene
ENSGALG00000005797 | COL20A1
Description
collagen alpha-1(XX) chain precursor [Source:RefSeq peptide;Acc:NP_001004392]
Coordinates
chr20:9207202-9207883:+
Coord C1 exon
chr20:9207202-9207255
Coord A exon
chr20:9207437-9207490
Coord C2 exon
chr20:9207830-9207883
Length
54 bp
Sequences
Splice sites
3' ss Seq
CCAGCAATTCTGATTTACAGGGC
3' ss Score
5.26
5' ss Seq
AAGGTAAAA
5' ss Score
8.38
Exon sequences
Seq C1 exon
GGACCACCAGGTATTAAAGGAGAGAAAGGAGACACTGGAAGTCCTGGCATGCAG
Seq A exon
GGCATTCCTGGTGTGCAGGGAGCTCCAGGCAGAGATGGTCTTCAAGGTGCAAAG
Seq C2 exon
GGGGTGAGGGGACTGGAAGGCACAGCTGGGCCCCCAGGACCTCCTGGACCAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005797_CASSETTE4
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(30.4=100)
A:
PF0139113=Collagen=FE(30.4=100)
C2:
PF0139113=Collagen=PD(23.2=72.2),PF0139113=Collagen=PU(28.3=94.4)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCACCAGGTATTAAAGGAGAGAAAGG
R:
CCTTGGTCCAGGAGGTCC
Band lengths:
105-159
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]