DreEX0023195 @ danRer10
Exon Skipping
Gene
ENSDARG00000069093 | col2a1a
Description
collagen, type II, alpha 1a [Source:ZFIN;Acc:ZDB-GENE-980526-192]
Coordinates
chr8:21180434-21181297:+
Coord C1 exon
chr8:21180434-21180487
Coord A exon
chr8:21180756-21180863
Coord C2 exon
chr8:21181244-21181297
Length
108 bp
Sequences
Splice sites
3' ss Seq
TCTGTTTGTACGTTTTTTAGGGT
3' ss Score
9.64
5' ss Seq
AATGTGAGT
5' ss Score
7.8
Exon sequences
Seq C1 exon
GGTAATCCTGGATCTGATGGTCCACCTGGTAGAGATGGTGCTGCTGGTGTGAAG
Seq A exon
GGTGAGCGTGGTAACACTGGCCCAATTGGTGCTCCTGGAGCTCCTGGTGCCCCTGGCGCTCCTGGTTCAGTTGGTCCAATTGGCAAACAGGGAGACAGAGGAGAGAAT
Seq C2 exon
GGCCCACAAGGACCTGCTGGACCCCCTGGACCCGCTGGAGCTCGAGGCATGGTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000069093-'50-49,'50-48,51-49
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:
NO
A:
NO
C2:
PF0139113=Collagen=PU(11.8=44.4)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTAATCCTGGATCTGATGGTCC
R:
AACCATGCCTCGAGCTCCAG
Band lengths:
108-216
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]