DreEX6060101 @ danRer10
Exon Skipping
Gene
ENSDARG00000091398 | COL13A1
Description
collagen, type XIII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2190]
Coordinates
chr13:7735642-7738143:+
Coord C1 exon
chr13:7735642-7735686
Coord A exon
chr13:7737916-7737966
Coord C2 exon
chr13:7738117-7738143
Length
51 bp
Sequences
Splice sites
3' ss Seq
CCTTTTCTGTTTTTCCTAAGGTC
3' ss Score
10.81
5' ss Seq
ATGGTGAGG
5' ss Score
7.61
Exon sequences
Seq C1 exon
GGTCAGAAGGGTGAACCTGGGGAGAAAGGAGATAAAGCAGAGCTG
Seq A exon
GTCTATGGGCCTGCTGGACCTCCAGGACCTGCTGGGCCAGTTGGGCCAATG
Seq C2 exon
GGATCTCCAGGTTTGTCAGGACCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000091398-'35-41,'35-40,36-41=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=FE(16.7=100),PF0139113=Collagen=FE(22.6=100),PF0139113=Collagen=PU(3.4=13.3)
A:
PF0139113=Collagen=FE(29.6=100),PF0139113=Collagen=PU(19.7=88.2)
C2:
PF0139113=Collagen=FE(14.8=100),PF0139113=Collagen=FE(10.5=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGAACCTGGGGAGAAAGGA
R:
TGGTCCTGACAAACCTGGAGA
Band lengths:
60-111
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]