GgaEX6044077 @ galGal4
Exon Skipping
Gene
ENSGALG00000005180 | COL11A1
Description
collagen, type XI, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2186]
Coordinates
chr8:10240870-10243801:+
Coord C1 exon
chr8:10240870-10240923
Coord A exon
chr8:10241019-10241063
Coord C2 exon
chr8:10243748-10243801
Length
45 bp
Sequences
Splice sites
3' ss Seq
ACATTGTTCTTCTTTTTTAGGGT
3' ss Score
12.89
5' ss Seq
AGGGTGCGT
5' ss Score
7.22
Exon sequences
Seq C1 exon
GGTCCAAGAGGCTCAAGAGGCCCAAGAGGTCCCACAGGCAAACCAGGTCCAAAG
Seq A exon
GGTACTTCAGGCAATGATGGTCCGCCTGGCCCACCAGGTGAAAGG
Seq C2 exon
GGACCACAAGGGCCTCAAGGACCTGTTGGATTTCCTGGACCAAAGGGACCCCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005180-'48-48,'48-46,49-48=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=FE(25.0=100)
A:
PF0139113=Collagen=PD(1.5=6.7)
C2:
NO
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:
GGTCCAAGAGGCTCAAGAGG
R:
TGGGGGTCCCTTTGGTCC
Band lengths:
108-153
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]