GgaEX6044062 @ galGal4
Exon Skipping
Gene
ENSGALG00000005180 | COL11A1
Description
collagen, type XI, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2186]
Coordinates
chr8:10276509-10280866:+
Coord C1 exon
chr8:10276509-10276616
Coord A exon
chr8:10276699-10276752
Coord C2 exon
chr8:10280813-10280866
Length
54 bp
Sequences
Splice sites
3' ss Seq
AAATTTTTTATTTTCTCTAGGGA
3' ss Score
8.77
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
Exon sequences
Seq C1 exon
GGTGAACCTGGTGCAGAAGGAGCTCCTGGAAAAACAGGTCCAGTTGGTCCTCAGGGACCAGCAGGAAAACCTGGCCCTGAAGGTCTCCGGGGCATTCCTGGCCCTGTG
Seq A exon
GGAGAACAAGGTCTACCTGGAGCACCAGGCCAGGATGGCCCTCCTGGGCCACTG
Seq C2 exon
GGCCCACCTGGCTTGCCTGGTCTGAAAGGAGATCCAGGATCCAAAGGAGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005180-'72-77,'72-73,73-77=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(42.1=88.9)
A:
PF0139113=Collagen=FE(22.4=100)
C2:
PF0139113=Collagen=FE(22.4=100),PF0139113=Collagen=PU(24.3=94.4)
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:
GTGAACCTGGTGCAGAAGGAG
R:
CTCCTTTCAGACCAGGCAAGC
Band lengths:
138-192
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]