Special

GgaEX6044058 @ galGal4

Exon Skipping

Gene
Description
collagen, type XI, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2186]
Coordinates
chr8:10282387-10282727:+
Coord C1 exon
chr8:10282387-10282440
Coord A exon
chr8:10282530-10282565
Coord C2 exon
chr8:10282674-10282727
Length
36 bp
Sequences
Splice sites
3' ss Seq
GCTTATACTCTTGTCCATAGGGT
3' ss Score
9.25
5' ss Seq
AGTGTGAGT
5' ss Score
6.96
Exon sequences
Seq C1 exon
GGAATTTCTGGTCCTGCTGGTCCACTCGGACCCCCTGGTCCTCCTGGTTTACCT
Seq A exon
GGTCCCCAAGGTCCAAAAGGTTCCAAAGGATCCAGT
Seq C2 exon
GGTCCTGCTGGCCAAAAGGGTGACAGTGGTTTACCTGGCCCACCTGGTCCTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005180-'80-81,'80-80,81-81=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=PD(21.4=83.3),PF0139113=Collagen=FE(28.3=100)
A:
PF0139113=Collagen=FE(18.3=100)
C2:
PF0139113=Collagen=FE(28.3=100)


Main Inclusion Isoform:


Main Skipping Isoform:
NA


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
Other assemblies
Primers PCR
Suggestions for RT-PCR validation
F:
GGAATTTCTGGTCCTGCTGGT
R:
GTGGGCCAGGTAAACCACTG
Band lengths:
97-133
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]