DreEX0002944 @ danRer10
Exon Skipping
Gene
ENSDARG00000091398 | COL13A1
Description
collagen, type XIII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2190]
Coordinates
chr13:7667163-7672006:+
Coord C1 exon
chr13:7667163-7667198
Coord A exon
chr13:7669874-7669900
Coord C2 exon
chr13:7671956-7672006
Length
27 bp
Sequences
Splice sites
3' ss Seq
TGTCTGCTGTGACTGACCAGGGC
3' ss Score
6.79
5' ss Seq
AAGGTAAGT
5' ss Score
11
Exon sequences
Seq C1 exon
GGAGACAAAGGATCATTGGGCATTCCTGGAAGAATG
Seq A exon
GGCTTAAAGGGAAACCTGGGGGAGAAG
Seq C2 exon
GGAGCACCAGGAGAGCCAGGTCTGTCTATCATTGGCCCACGAGGACCTCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000091398_MULTIEX2-1/2=C1-2
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=PU(35.5=91.7)
A:
PF0139113=Collagen=FE(25.8=100)
C2:
PF0139113=Collagen=PD(29.0=52.9),PF0139113=Collagen=PU(12.5=41.2)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGACAAAGGATCATTGGGCA
R:
TCCTCGTGGGCCAATGATAGA
Band lengths:
81-108
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]