GgaEX1016335 @ galGal4
Exon Skipping
Gene
ENSGALG00000015908 | COL12A1
Description
collagen alpha-1(XII) chain precursor [Source:RefSeq peptide;Acc:NP_990352]
Coordinates
chr3:80214806-80253107:+
Coord C1 exon
chr3:80214806-80214913
Coord A exon
chr3:80228729-80229019
Coord C2 exon
chr3:80252958-80253107
Length
291 bp
Sequences
Splice sites
3' ss Seq
TTACTTTCAATTTCTTTCAGTGG
3' ss Score
9.05
5' ss Seq
TGGGTAAGT
5' ss Score
10.24
Exon sequences
Seq C1 exon
ATTCATTCATGTTGTTGTGAGCTGAAAGGGCAGACATGAGGACAGCGCTGTGCTCGGCGGTGGCTGCGCTGTGTGCCGCCGCCCTCCTCTCCTCCATCGAGGCTGAAG
Seq A exon
TGGTGGAGCCTGCTTCAAATCTAGTAGCCACTCAGATCTCCTCAAAATCTGTTAGGATCACTTGGGATCCATCCACAAGCCAAATAACTGGCTATCGGGTACAGTTCATCCCAATGATAGCTGGTGGAAAACAACATGTGTTGAGTGTGGGTCCTCAGACTACTGCTCTGAATGTTAAAGATCTCTCTCCAGACACAGAGTATCAAATCAATGTTTATGCAATGAAAGGACTGACCCCCAGTGAGCCGATAACTATAATGGAAAAAACACAACAAGTCAAAGTTCAAGTGG
Seq C2 exon
GTTTAGAATGTAGAACCAGAGCAGAAGCTGATATCGTGCTACTGGTGGATGGCTCATGGAGTATCGGGAGGCCAAATTTTAAAACTGTCAGGAACTTCATTTCCCGTATTGTTGAAGTTTTTGATATTGGTCCTGACAAAGTACAGATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015908_MULTIEX1-8/17=C1-C2
Average complexity
C3
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=0.020
Domain overlap (PFAM):
C1:
NO
A:
PF0004116=fn3=WD(100=82.7)
C2:
PF0009223=VWA=PU(23.1=78.4)
Main Skipping Isoform:
ENSGALT00000025640fB6331
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:
TCATGTTGTTGTGAGCTGAAAGG
R:
CAATCTGTACTTTGTCAGGACCA
Band lengths:
252-543
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]