DreEX0023216 @ danRer10
Exon Skipping
Gene
ENSDARG00000069093 | col2a1a
Description
collagen, type II, alpha 1a [Source:ZFIN;Acc:ZDB-GENE-980526-192]
Coordinates
chr8:21178908-21179386:+
Coord C1 exon
chr8:21178908-21179015
Coord A exon
chr8:21179147-21179200
Coord C2 exon
chr8:21179333-21179386
Length
54 bp
Sequences
Splice sites
3' ss Seq
GTTTCACTGCTTGATTTCAGGGC
3' ss Score
7.37
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
Exon sequences
Seq C1 exon
GGTGCTGATGGCCAACCTGGAAATAAGGGAGAGCAGGGTGAATCAGGACAGAAAGGTGATTCAGGAGCCCCTGGACCCCAAGGACCATCAGGTGCTCCAGGCCCAGTG
Seq A exon
GGCCCAACTGGTGTCACAGGACCTAAGGGAGCACGTGGAGCCCAAGGAGCCCCT
Seq C2 exon
GGTGCCACTGGTTTCCCAGGTGCTGCAGGACGAGTTGGACCCCCTGGCCCCAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000069093_MULTIEX2-5/10=4-6
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=PD(26.3=55.6)
A:
PF0139113=Collagen=PU(6.4=27.8)
C2:
PF0139113=Collagen=FE(21.8=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGATGGCCAACCTGGAAAT
R:
GTCCAACTCGTCCTGCAGC
Band lengths:
145-199
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]