GgaEX6044064 @ galGal4
Exon Skipping
Gene
ENSGALG00000005180 | COL11A1
Description
collagen, type XI, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2186]
Coordinates
chr8:10270704-10276616:+
Coord C1 exon
chr8:10270704-10270757
Coord A exon
chr8:10276050-10276103
Coord C2 exon
chr8:10276509-10276616
Length
54 bp
Sequences
Splice sites
3' ss Seq
TTCATGTTCCTCTTTCACAGGGA
3' ss Score
10.47
5' ss Seq
AAGGTAATA
5' ss Score
8.49
Exon sequences
Seq C1 exon
GGTCCACCAGGTCCTTCAGGAGAAGCTGGCCCACCTGGTCCACCTGGAAAGAGA
Seq A exon
GGACCTCCTGGAGCAACTGGAGCTGAAGGCAGACAAGGTGAAAAAGGTGCAAAG
Seq C2 exon
GGTGAACCTGGTGCAGAAGGAGCTCCTGGAAAAACAGGTCCAGTTGGTCCTCAGGGACCAGCAGGAAAACCTGGCCCTGAAGGTCTCCGGGGCATTCCTGGCCCTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005180-'70-72,'70-71,71-72=AN
Average complexity
A_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:
NO
A:
NO
C2:
PF0139113=Collagen=PU(42.1=88.9)
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:
CCACCAGGTCCTTCAGGAGAA
R:
GACCTTCAGGGCCAGGTTTTC
Band lengths:
136-190
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]