GgaEX0005708 @ galGal4
Exon Skipping
Gene
ENSGALG00000004286 | COL13A1
Description
collagen, type XIII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2190]
Coordinates
chr6:10622627-10624177:+
Coord C1 exon
chr6:10622627-10622668
Coord A exon
chr6:10623171-10623197
Coord C2 exon
chr6:10624097-10624177
Length
27 bp
Sequences
Splice sites
3' ss Seq
TCATATCTCGTTTCATACAGGGT
3' ss Score
8.01
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
Exon sequences
Seq C1 exon
ATGTCTGGTCCCCCTGGACCTCAAGGCCCACCAGGACCTCCA
Seq A exon
GGTCTTCAGGGCCTCCCAGGACCGAAG
Seq C2 exon
GGGGAAGCAGGGATTGATGGAATGAAAGGAGAGAAGGGTGTCCAGGGTGAAAAAGGAGACAGAGGACCACTGGGATTACCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004286-'44-44,'44-43,45-44
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(14.6=100),PF0139113=Collagen=FE(11.8=100)
A:
PF0139113=Collagen=FE(9.0=100),PF0139113=Collagen=FE(13.6=100)
C2:
PF0139113=Collagen=PD(10.6=37.0),PF0139113=Collagen=FE(41.9=100),PF0139113=Collagen=PU(28.0=85.2)
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:
CCCCTGGACCTCAAGGCC
R:
GGTAATCCCAGTGGTCCTCTGT
Band lengths:
112-139
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]