GgaEX6044078 @ galGal4
Exon Skipping
Gene
ENSGALG00000005180 | COL11A1
Description
collagen, type XI, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2186]
Coordinates
chr8:10233328-10239007:+
Coord C1 exon
chr8:10233328-10233435
Coord A exon
chr8:10236282-10236335
Coord C2 exon
chr8:10238954-10239007
Length
54 bp
Sequences
Splice sites
3' ss Seq
GCACTGTCTTATTATTACAGGGT
3' ss Score
7.67
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
Exon sequences
Seq C1 exon
GGAGAAGTTGGTCAACCTGGCCCACGAGGAGAAGATGGTCCAGAAGGTCCAAAAGGTCGAGCAGGTCCATCTGGGGACCCAGGTGCTGCTGGTCCAGCTGGGGAAAAG
Seq A exon
GGTAAGCTTGGTGTACCTGGATTGCCAGGATATCCAGGAAGACAAGGTCCAAAG
Seq C2 exon
GGCTCAACTGGTTTCCCAGGATTTCCAGGTGCCAATGGAGAGAAAGGTGCAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005180-'43-43,'43-41,44-43=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=PD(16.1=27.8),PF0139113=Collagen=FE(36.5=100)
A:
PF0139113=Collagen=FE(17.7=100),PF0139113=Collagen=PU(20.6=77.8)
C2:
PF0139113=Collagen=FE(17.7=100),PF0139113=Collagen=FE(25.0=100)
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:
CCACGAGGAGAAGATGGTCCA
R:
GCACCTTTCTCTCCATTGGCA
Band lengths:
137-191
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]