DreEX6060100 @ danRer10
Exon Skipping
Gene
ENSDARG00000091398 | COL13A1
Description
collagen, type XIII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2190]
Coordinates
chr13:7737916-7738323:+
Coord C1 exon
chr13:7737916-7737966
Coord A exon
chr13:7738117-7738143
Coord C2 exon
chr13:7738237-7738323
Length
27 bp
Sequences
Splice sites
3' ss Seq
AACTTTTTGTTTCTCATCAGGGA
3' ss Score
9.44
5' ss Seq
AAGGTTGGT
5' ss Score
8.46
Exon sequences
Seq C1 exon
GTCTATGGGCCTGCTGGACCTCCAGGACCTGCTGGGCCAGTTGGGCCAATG
Seq A exon
GGATCTCCAGGTTTGTCAGGACCAAAG
Seq C2 exon
GGAGAGCCAGGAATAGGCCTGAAAGGAGAGAAGGGATCATCTGGACAAAAGGGAGATAAAGGAGACAGGGGCCATCTTGGACTTCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000091398-'36-42,'36-41,37-42=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(29.6=100),PF0139113=Collagen=PU(19.7=88.2)
A:
PF0139113=Collagen=FE(14.8=100),PF0139113=Collagen=FE(10.5=100)
C2:
PF0139113=Collagen=PD(8.1=17.2),PF0139113=Collagen=FE(47.5=100),PF0139113=Collagen=PU(39.7=86.2)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACCTCCAGGACCTGCTGG
R:
AAGATGGCCCCTGTCTCCTTT
Band lengths:
113-140
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]