GgaEX0023393 @ galGal4
Exon Skipping
Gene
ENSGALG00000015908 | COL12A1
Description
collagen alpha-1(XII) chain precursor [Source:RefSeq peptide;Acc:NP_990352]
Coordinates
chr3:80292983-80294961:+
Coord C1 exon
chr3:80292983-80293078
Coord A exon
chr3:80294775-80294806
Coord C2 exon
chr3:80294908-80294961
Length
32 bp
Sequences
Splice sites
3' ss Seq
GTATCTTGTTTTTCCCATAGTAC
3' ss Score
7.96
5' ss Seq
GAGGTGTGT
5' ss Score
6.14
Exon sequences
Seq C1 exon
GGGCCACCTGGTCCTCGTGGTGAGACAGGTCCTCCAGGTCCTCAAGGCCCTCCAGGTCCTCAGGGTCCCAACGGGCTTTCAATCCCAGGAGAACCG
Seq A exon
TACATAGATGGCTTATGGACTCCTTCGTTGAG
Seq C2 exon
GGTCGGCAAGGAATGAAAGGTGATGCTGGCCAGCCTGGACTACCAGGACGATCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015908_CASSETTE3
Average complexity
S*
Mappability confidence:
100%=100=50%
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(48.3=87.5),PF0139113=Collagen=PU(10.5=18.8)
A:
NO
C2:
PF0139113=Collagen=FE(29.8=100)
Main Inclusion Isoform:
ENSGALT00000025640fB2921
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
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:
GTGGTGAGACAGGTCCTCCAG
R:
CTGGCCAGCATCACCTTTCAT
Band lengths:
113-145
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]