GgaEX1016320 @ galGal4
Exon Skipping
Gene
ENSGALG00000015908 | COL12A1
Description
collagen alpha-1(XII) chain precursor [Source:RefSeq peptide;Acc:NP_990352]
Coordinates
chr3:80298397-80305823:+
Coord C1 exon
chr3:80298397-80298468
Coord A exon
chr3:80305616-80305651
Coord C2 exon
chr3:80305757-80305823
Length
36 bp
Sequences
Splice sites
3' ss Seq
CTGTAATATTTTTGCTCTAGGGT
3' ss Score
8.7
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
Exon sequences
Seq C1 exon
GGTGCCCCAGGAGTTCCAGGAGTTGCTGGTCCAAGTGGAAAGCCAGGGAAACCAGGAGACCGTGGGACACCA
Seq A exon
GGTACACCTGGAATGAAGGGAGAAAAGGGTGACAGA
Seq C2 exon
GGTGACATTGCTTCTCAGAACATGATGCGAGCAGTTGCAAGACAAGTTTGTGAACAATTGATAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015908-'88-84,'88-83,90-84
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(35.9=100)
A:
PF0139113=Collagen=FE(17.2=100)
C2:
PF0139113=Collagen=PD(9.4=26.1)
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:
CAGGAGTTCCAGGAGTTGCTG
R:
ACTTGTCTTGCAACTGCTCGC
Band lengths:
112-148
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]