DreEX0002948 @ danRer10
Exon Skipping
Gene
ENSDARG00000091398 | COL13A1
Description
collagen, type XIII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2190]
Coordinates
chr13:7679306-7691150:+
Coord C1 exon
chr13:7679306-7679332
Coord A exon
chr13:7687157-7687198
Coord C2 exon
chr13:7691058-7691150
Length
42 bp
Sequences
Splice sites
3' ss Seq
AATGCTGCTGATCTCAACAGAAA
3' ss Score
6.97
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
Exon sequences
Seq C1 exon
GGTGCATGCGGAGAGTACACTCACAGG
Seq A exon
AAACGCCGTATTGTCAACGCCTCAGCTGGAGGACAGGCCACA
Seq C2 exon
CAGGGTGAGCCTGGAGCACAAGGACCACCGGGACCTCCTGGCCCCCCAGGCCCACCTGGGCCTCTTGGCCTAACTGGTGCTATTGGGCCTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000091398_MULTIEX3-3/4=1-C2
Average complexity
ME(2-3[100=98];3-4[97=98])
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=FE(14.3=100),PF0139113=Collagen=PU(0.1=0.0)
A:
PF0139113=Collagen=PU(14.5=57.1)
C2:
PF0139113=Collagen=FE(68.2=100)
Other Inclusion Isoforms:
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:
GTGCATGCGGAGAGTACACTC
R:
GAGGCCCAATAGCACCAGTTA
Band lengths:
117-159
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]