DreEX0023357 @ danRer10
Exon Skipping
Gene
ENSDARG00000012593 | col5a1
Description
procollagen, type V, alpha 1 [Source:ZFIN;Acc:ZDB-GENE-041105-6]
Coordinates
chr21:6741287-6765332:+
Coord C1 exon
chr21:6741287-6741340
Coord A exon
chr21:6744447-6744554
Coord C2 exon
chr21:6765279-6765332
Length
108 bp
Sequences
Splice sites
3' ss Seq
CAATCTCACTTTCCATTTAGGGA
3' ss Score
8.63
5' ss Seq
AAGGTGTGA
5' ss Score
4.59
Exon sequences
Seq C1 exon
GGTTTCCAAGGAAAAACTGGACCTCCCGGACCTCCAGGTGTAGTCGGACCTCAG
Seq A exon
GGACCAACAGGTGAGACGGGACCAATGGGAGAGCGAGGTCACCCTGGACCCCCAGGACCACCTGGTGAACAGGGTCTACCTGGAGCTGCAGGAAAAGAGGGAGCAAAG
Seq C2 exon
GGAGACGCTGGTGAAGCAGGAGAACCAGGCCCTCAGGGAGACATCGGCCCTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000012593_MULTIEX1-16/38=15-26
Average complexity
C2
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(25.7=100)
A:
PF0139113=Collagen=PD(27.1=51.4)
C2:
PF0139113=Collagen=PD(2.4=10.5)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTTTCCAAGGAAAAACTGGACC
R:
GAGGGCCGATGTCTCCCTG
Band lengths:
106-214
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]