DreEX0002939 @ danRer10
Exon Skipping
Gene
ENSDARG00000091398 | COL13A1
Description
collagen, type XIII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2190]
Coordinates
chr13:7733949-7735686:+
Coord C1 exon
chr13:7733949-7734083
Coord A exon
chr13:7735391-7735462
Coord C2 exon
chr13:7735642-7735686
Length
72 bp
Sequences
Splice sites
3' ss Seq
ATTTTTTCCTCATTCTGTAGGGT
3' ss Score
10.14
5' ss Seq
ATGGTACGC
5' ss Score
8.57
Exon sequences
Seq C1 exon
GGTCCAAGAGGAAAGCCGGGAGAACCTGGACCCATCGGCCCTCCTGGACCAGAGGGAGCACGAGGAGAAGGAGGAGTCATGGGTTTCCCTGGGCCAAAAGGAGACAAGGGAGACATGGGCCCCTCAGGATCGCCT
Seq A exon
GGTTTAGATGGCCCTACTGGAGAAAAGGGGGTTTCAGGGCCCCCTGGCCATATTGGATTGCCAGGCCCAATG
Seq C2 exon
GGTCAGAAGGGTGAACCTGGGGAGAAAGGAGATAAAGCAGAGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000091398_CASSETTE2
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=PD(37.1=51.1),PF0139113=Collagen=PU(54.7=77.8)
A:
PF0139113=Collagen=FE(27.4=100),PF0139113=Collagen=PU(22.6=58.3)
C2:
PF0139113=Collagen=FE(16.7=100),PF0139113=Collagen=FE(22.6=100),PF0139113=Collagen=PU(3.4=13.3)
Main Inclusion Isoform:
ENSDART00000158523fB279
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAGAGGAAAGCCGGGAGAAC
R:
GCTTTATCTCCTTTCTCCCCAGG
Band lengths:
169-241
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]