DreEX6060102 @ danRer10
Exon Skipping
Gene
ENSDARG00000091398 | COL13A1
Description
collagen, type XIII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2190]
Coordinates
chr13:7735391-7737966:+
Coord C1 exon
chr13:7735391-7735483
Coord A exon
chr13:7735642-7735686
Coord C2 exon
chr13:7737916-7737966
Length
45 bp
Sequences
Splice sites
3' ss Seq
CCCTTGTTTTTTGTCACTAGGGT
3' ss Score
10.37
5' ss Seq
CTGGTATGT
5' ss Score
8.14
Exon sequences
Seq C1 exon
GGTTTAGATGGCCCTACTGGAGAAAAGGGGGTTTCAGGGCCCCCTGGCCATATTGGATTGCCAGGCCCAATGGTACGCAATGGTGGTCCTCAA
Seq A exon
GGTCAGAAGGGTGAACCTGGGGAGAAAGGAGATAAAGCAGAGCTG
Seq C2 exon
GTCTATGGGCCTGCTGGACCTCCAGGACCTGCTGGGCCAGTTGGGCCAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000091398-'34-40,'34-39,35-40=AN
Average complexity
A_C3
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(42.2=87.1),PF0139113=Collagen=PU(15.8=29.0)
A:
PF0139113=Collagen=FE(16.7=100),PF0139113=Collagen=FE(22.6=100),PF0139113=Collagen=PU(3.4=13.3)
C2:
PF0139113=Collagen=FE(29.6=100),PF0139113=Collagen=PU(19.7=88.2)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTTTAGATGGCCCTACTGGAG
R:
CAACTGGCCCAGCAGGTC
Band lengths:
136-181
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]