GgaEX0023390 @ galGal4
Exon Skipping
Gene
ENSGALG00000015908 | COL12A1
Description
collagen alpha-1(XII) chain precursor [Source:RefSeq peptide;Acc:NP_990352]
Coordinates
chr3:80290674-80291424:+
Coord C1 exon
chr3:80290674-80290751
Coord A exon
chr3:80290856-80290949
Coord C2 exon
chr3:80291338-80291424
Length
94 bp
Sequences
Splice sites
3' ss Seq
ATTTAAATCTCTGTTGTCAGAGC
3' ss Score
5.37
5' ss Seq
AAGGTTATA
5' ss Score
1.81
Exon sequences
Seq C1 exon
TTAGAAATCCAGAATTTTGACATTGTGTGCAGTCCAGTTTGGACTAGCAGAGACAGATGCTGTGATCTTCCTTCTATG
Seq A exon
AGCAACCAGTGAACAACTCTGCATTTAGAGTTCTGCATCTGAGAGAGAAAGACTGCAGTGTGCTAGATTGAGGATAGTACTGAGAAGTGTCAAG
Seq C2 exon
AGAGATGAAGCAAAATGTCCAGCTCTTCCAAATGCTTGCACCTGTACTCAAGACAGTGTGGGACCTCCAGGACCCCCTGGACCTGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015908_CASSETTE2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.023 A=0.000 C2=0.638
Domain overlap (PFAM):
C1:
PF079537=Toxin_R_bind_N=PD(12.0=46.2)
A:
NO
C2:
PF0139113=Collagen=PU(17.2=34.5)
Main Inclusion Isoform:
ENSGALT00000025640fB2920
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATCCAGAATTTTGACATTGTGTGCA
R:
AGGGGGTCCTGGAGGTCC
Band lengths:
151-245
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]