GgaEX6044080 @ galGal4
Exon Skipping
Gene
ENSGALG00000005180 | COL11A1
Description
collagen, type XI, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2186]
Coordinates
chr8:10229832-10233435:+
Coord C1 exon
chr8:10229832-10229876
Coord A exon
chr8:10232469-10232522
Coord C2 exon
chr8:10233328-10233435
Length
54 bp
Sequences
Splice sites
3' ss Seq
TCTATTTTTGCCTTACTCAGGGT
3' ss Score
7.81
5' ss Seq
CGGGTAAGC
5' ss Score
9.14
Exon sequences
Seq C1 exon
GGAGCTGATGGTGTTCGTGGTCTCAAGGGATCCAAAGGTGAAAAG
Seq A exon
GGTGAAGATGGTTTCCCAGGATTTAAGGGTGACATGGGCCTTAAAGGTGATCGG
Seq C2 exon
GGAGAAGTTGGTCAACCTGGCCCACGAGGAGAAGATGGTCCAGAAGGTCCAAAAGGTCGAGCAGGTCCATCTGGGGACCCAGGTGCTGCTGGTCCAGCTGGGGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005180-'41-40,'41-39,42-40=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(22.6=100)
A:
PF0139113=Collagen=FE(27.4=100),PF0139113=Collagen=PU(12.5=66.7)
C2:
PF0139113=Collagen=PD(16.1=27.8),PF0139113=Collagen=FE(36.5=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:
TCGTGGTCTCAAGGGATCCAA
R:
CTTTTCCCCAGCTGGACCAG
Band lengths:
139-193
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]