GgaEX6044073 @ galGal4
Exon Skipping
Gene
ENSGALG00000005180 | COL11A1
Description
collagen, type XI, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2186]
Coordinates
chr8:10246329-10248183:+
Coord C1 exon
chr8:10246329-10246382
Coord A exon
chr8:10247269-10247376
Coord C2 exon
chr8:10248094-10248183
Length
108 bp
Sequences
Splice sites
3' ss Seq
GAGTTTACCTTTGTGCTTAGGGT
3' ss Score
7.25
5' ss Seq
AAGGTATGA
5' ss Score
9.11
Exon sequences
Seq C1 exon
GGATTTCAAGGAAAAACTGGTCCTCCTGGTCCTGGTGGGGTTGTTGGCCCTCAG
Seq A exon
GGTCCTACTGGTGAGACTGGCCCAATTGGTGAAAGAGGTCATCCAGGTCCTCCTGGCCCACCAGGTGAACAAGGCCTCCCAGGTGCTGCAGGAAAAGAAGGTGCTAAG
Seq C2 exon
GGTGACCCAGGTCCTCAAGGTATTCCTGGGAAAGATGGACCAGCAGGTCTTCGTGGTTTCCCTGGAGAGAGAGGCCTTCCAGGAGCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005180-'52-53,'52-52,53-53=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:
PF0139113=Collagen=PU(12.9=61.1)
A:
PF0139113=Collagen=PU(30.9=80.6)
C2:
PF0139113=Collagen=FE(34.1=100),PF0139113=Collagen=PU(11.6=26.7)
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:
GGATTTCAAGGAAAAACTGGTCCT
R:
CTCCTGGAAGGCCTCTCTCTC
Band lengths:
139-247
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]