GgaEX1016318 @ galGal4
Exon Skipping
Gene
ENSGALG00000015908 | COL12A1
Description
collagen alpha-1(XII) chain precursor [Source:RefSeq peptide;Acc:NP_990352]
Coordinates
chr3:80283362-80290751:+
Coord C1 exon
chr3:80283362-80283471
Coord A exon
chr3:80289558-80289707
Coord C2 exon
chr3:80290674-80290751
Length
150 bp
Sequences
Splice sites
3' ss Seq
TGCATTAAACTTTTTTTCAGGTT
3' ss Score
8.45
5' ss Seq
ACAGTAAGA
5' ss Score
5.96
Exon sequences
Seq C1 exon
CTGGCAGCAAAGTGTTGTCATTCTTTAACAAGGATACAAGGGGAGAAGTTCAAACTGTAACTTTTGATAATGATGAAGTAAAGAAAATCTTTTATGGAAGCTTCCACAAG
Seq A exon
GTTCATATTGTTGTCACTTCATCAAATGTTAAGATTTACATTGACTGCAGTGAAATACTGGAAAAGCCAATTAAGGAGGCTGGGAATATCACAACTGATGGCTATGAAATACTTGGGAAACTTCTGAAAGGTGACCGGAGATCAGCAACA
Seq C2 exon
TTAGAAATCCAGAATTTTGACATTGTGTGCAGTCCAGTTTGGACTAGCAGAGACAGATGCTGTGATCTTCCTTCTATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015908-'75-69,'75-67,78-69
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.023
Domain overlap (PFAM):
C1:
PF079537=Toxin_R_bind_N=PU(36.0=97.3)
A:
PF079537=Toxin_R_bind_N=FE(49.0=100)
C2:
PF079537=Toxin_R_bind_N=PD(12.0=46.2)
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:
CTGGCAGCAAAGTGTTGTCAT
R:
TAGAAGGAAGATCACAGCATCTGT
Band lengths:
186-336
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]