GgaEX1016281 @ galGal4
Exon Skipping
Gene
ENSGALG00000005180 | COL11A1
Description
collagen, type XI, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2186]
Coordinates
chr8:10238954-10240923:+
Coord C1 exon
chr8:10238954-10239007
Coord A exon
chr8:10240569-10240613
Coord C2 exon
chr8:10240870-10240923
Length
45 bp
Sequences
Splice sites
3' ss Seq
CTTCTGTACTTTCTACACAGGGA
3' ss Score
9.16
5' ss Seq
ACAGTATGT
5' ss Score
6.05
Exon sequences
Seq C1 exon
GGCTCAACTGGTTTCCCAGGATTTCCAGGTGCCAATGGAGAGAAAGGTGCAAGG
Seq A exon
GGATTACATGGCAAACCAGGCCCCAGAGGACAGCGAGGACCAACA
Seq C2 exon
GGTCCAAGAGGCTCAAGAGGCCCAAGAGGTCCCACAGGCAAACCAGGTCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005180-'46-45,'46-44,47-45
Average complexity
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=FE(17.7=100),PF0139113=Collagen=FE(25.0=100)
A:
PF0139113=Collagen=PD(10.4=66.7),PF0139113=Collagen=FE(20.6=100)
C2:
PF0139113=Collagen=FE(25.0=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTCAACTGGTTTCCCA
R:
CTTTGGACCTGGTTTGCCTGT
Band lengths:
108-153
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]