GgaEX1016283 @ galGal4
Exon Skipping
Gene
ENSGALG00000005180 | COL11A1
Description
collagen, type XI, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2186]
Coordinates
chr8:10251816-10254472:+
Coord C1 exon
chr8:10251816-10251923
Coord A exon
chr8:10253250-10253357
Coord C2 exon
chr8:10254419-10254472
Length
108 bp
Sequences
Splice sites
3' ss Seq
TTCCTTTTCCTGAAAACCAGGGT
3' ss Score
4.98
5' ss Seq
AAGGTGAAT
5' ss Score
6.38
Exon sequences
Seq C1 exon
GGCTCACCAGGGGAACGTGGAGCAGCAGGCACTGCTGGTCCAATTGGTCTACCAGGTCGTCCTGGACCTCAGGGTCCTCCAGGCCCTGCAGGGGAGAAGGGTGCTCCT
Seq A exon
GGTGAAAAAGGTCCTCAAGGTCCAGCTGGACGTGATGGAGTACAAGGTCCTGTAGGACTTCCTGGTCCTGCTGGTCCAAGTGGTTCTCCTGGAGAAGATGGTGACAAG
Seq C2 exon
GGTGAAATTGGTGAACCGGGTCAAAAAGGTAGTAAAGGTGACAAGGGAGAAAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005180-'56-57,'56-56,57-57
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(50.7=100),PF0139113=Collagen=PU(7.6=13.9)
A:
PF0139113=Collagen=PD(7.2=13.9),PF0139113=Collagen=FE(53.0=100)
C2:
PF0139113=Collagen=FE(25.8=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:
GGCTCACCAGGGGAACGT
R:
GTTTTCTCCCTTGTCACCTTTACT
Band lengths:
162-270
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]