DreEX0002940 @ danRer10
Exon Skipping
Gene
ENSDARG00000091398 | COL13A1
Description
collagen, type XIII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2190]
Coordinates
chr13:7738237-7744289:+
Coord C1 exon
chr13:7738237-7738323
Coord A exon
chr13:7743200-7743235
Coord C2 exon
chr13:7744236-7744289
Length
36 bp
Sequences
Splice sites
3' ss Seq
ACTCTTTACACACTGTCCAGGGG
3' ss Score
5.05
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
Exon sequences
Seq C1 exon
GGAGAGCCAGGAATAGGCCTGAAAGGAGAGAAGGGATCATCTGGACAAAAGGGAGATAAAGGAGACAGGGGCCATCTTGGACTTCCT
Seq A exon
GGGGCTCATGGTTTAGACGGCAGGCCTGGTCCAGTG
Seq C2 exon
GGTCTGATAGGACCAGCAGGAGTTCCTGGACCTGCAGGACCAAAAGGGGAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000091398_CASSETTE3
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(8.1=17.2),PF0139113=Collagen=FE(47.5=100),PF0139113=Collagen=PU(39.7=86.2)
A:
PF0139113=Collagen=FE(17.7=100)
C2:
PF0139113=Collagen=FE(27.4=100),PF0139113=Collagen=PU(2.9=11.1)
Main Inclusion Isoform:
ENSDART00000040379fB280
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCCTGAAAGGAGAGAAGGGA
R:
TTTCCCCTTTTGGTCCTGCAG
Band lengths:
124-160
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]