GgaEX1016301 @ galGal4
Exon Skipping
Gene
ENSGALG00000005180 | COL11A1
Description
collagen, type XI, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2186]
Coordinates
chr8:10175085-10228733:+
Coord C1 exon
chr8:10175085-10175247
Coord A exon
chr8:10223916-10223960
Coord C2 exon
chr8:10228689-10228733
Length
45 bp
Sequences
Splice sites
3' ss Seq
GTTTCTGTTGTTTGTTGCAGGGC
3' ss Score
10.89
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
Exon sequences
Seq C1 exon
GTGGCATCGAGTAGCCATTAGCGTGGAGAAGAAAAGCATTACAATGATTGTTGACTGCAACAAAAAAACGACAAAACCACTGGAGAGAAGTGGCAAACCAGTTGTAGACACTAACGGCATCACTGTCTTTGGAACAAGGATTCTGGATGAAGAAGTATTTGAG
Seq A exon
GGCATTGCAGGTATTGATGGACCTTCAGGCCCAAAGGGAAACATG
Seq C2 exon
GGTCATCCTGGCAAAGAGGGTCAGTCTGGAGAGAAAGGTGCATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005180_MULTIEX3-20/26=C1-24
Average complexity
C3
Mappability confidence:
96%=96=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.109 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0221019=Laminin_G_2=FE(45.8=100)
A:
PF0139113=Collagen=FE(19.7=100),PF0139113=Collagen=PU(12.7=53.3)
C2:
PF0139113=Collagen=PU(11.6=53.3)
Main Skipping Isoform:
ENSGALT00000008321fB6324
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:
ACGACAAAACCACTGGAGAGA
R:
TGCACCTTTCTCTCCAGACTGA
Band lengths:
138-183
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]