GgaEX1016349 @ galGal4
Exon Skipping
Gene
ENSGALG00000004286 | COL13A1
Description
collagen, type XIII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2190]
Coordinates
chr6:10621800-10624177:+
Coord C1 exon
chr6:10621800-10621853
Coord A exon
chr6:10622627-10622668
Coord C2 exon
chr6:10624097-10624177
Length
42 bp
Sequences
Splice sites
3' ss Seq
TATCTTGCATTGCTTTCTAGATG
3' ss Score
8.8
5' ss Seq
CCAGTAAGT
5' ss Score
9.09
Exon sequences
Seq C1 exon
GGAGAGAAGGGTCAGCCTGGGGAGCGTGGAGACAAAGGAAATCCAGGAGAATCG
Seq A exon
ATGTCTGGTCCCCCTGGACCTCAAGGCCCACCAGGACCTCCA
Seq C2 exon
GGGGAAGCAGGGATTGATGGAATGAAAGGAGAGAAGGGTGTCCAGGGTGAAAAAGGAGACAGAGGACCACTGGGATTACCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004286_MULTIEX3-11/12=10-C2
Average complexity
C3
Mappability confidence:
97%=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(19.1=100),PF0139113=Collagen=PU(0.1=0.0)
A:
PF0139113=Collagen=FE(14.6=100),PF0139113=Collagen=FE(11.8=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:
GAGAGAAGGGTCAGCCTGGG
R:
GGTAATCCCAGTGGTCCTCTGT
Band lengths:
133-175
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]