GgaEX6031702 @ galGal4
Exon Skipping
Gene
ENSGALG00000015908 | COL12A1
Description
collagen alpha-1(XII) chain precursor [Source:RefSeq peptide;Acc:NP_990352]
Coordinates
chr3:80272502-80274212:+
Coord C1 exon
chr3:80272502-80272621
Coord A exon
chr3:80273132-80273278
Coord C2 exon
chr3:80274096-80274212
Length
147 bp
Sequences
Splice sites
3' ss Seq
ATGCTTCCTTTCAATTCAAGGTT
3' ss Score
8.63
5' ss Seq
CATGTAAGT
5' ss Score
8.31
Exon sequences
Seq C1 exon
TTGGCCTGCTTCCTCCTCAGAATATATATATAACTGATGAATGGTATACACGATTCAGAGTTTCTTGGGATCCTTCACCATCCCCTGTTCTTGGCTATAAAATTGTATACAAGCCTGTGG
Seq A exon
GTTCAAATGAGCCCATGGAGGTTTTTGTGGGGGAAGTGACATCCTACACCTTGCATAATCTGTCTCCCAGTACTACTTATGATGTGAATGTTTATGCCCAGTACGACTCCGGAATGAGCATACCTTTGACAGATCAAGGCACTACAT
Seq C2 exon
TATACTTGAACGTCACCGACCTAACAACTTACAAAATTGGCTGGGATACTTTCTGTATCCGATGGTCACCTCACCGGTCAGCAACTTCCTACAGACTAAAGCTGAACCCAGCTGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015908-'61-54,'61-53,62-54=AN
Average complexity
A_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=0.175
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(46.8=90.2)
A:
PF0004116=fn3=PD(51.9=82.0)
C2:
PF0004116=fn3=PU(46.8=92.5)
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:
GGCCTGCTTCCTCCTCAGAAT
R:
TGGGTTCAGCTTTAGTCTGTAGGA
Band lengths:
228-375
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]