DreEX6049527 @ danRer10
Exon Skipping
Gene
ENSDARG00000069093 | col2a1a
Description
collagen, type II, alpha 1a [Source:ZFIN;Acc:ZDB-GENE-980526-192]
Coordinates
chr8:21177378-21177783:+
Coord C1 exon
chr8:21177378-21177485
Coord A exon
chr8:21177587-21177640
Coord C2 exon
chr8:21177730-21177783
Length
54 bp
Sequences
Splice sites
3' ss Seq
TTGATTATCTCATTTATTAGGGT
3' ss Score
7.25
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
Exon sequences
Seq C1 exon
GGTGCGATTGGGCCAGCTGGTGCTGCTGGAGCTCAAGGTCCTCCCGGTCTTCAAGGCATGCCTGGTGAGAGAGGAGCTGTTGGTATCTCTGGAGCTAAAGGTGACAGA
Seq A exon
GGTGACTCTGGAGAGAAGGGACCTGAAGGTGCTCCTGGTAAAGATGGTTCAAGA
Seq C2 exon
GGTTTGACTGGTCCAATTGGCCCACCTGGTCCTTCTGGTCCCAATGGCGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000069093-'39-38,'39-37,40-38=AN
Average complexity
A_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(17.5=30.6),PF0139113=Collagen=PU(40.8=80.6)
A:
PF0139113=Collagen=FE(23.9=100),PF0139113=Collagen=PU(0.1=0.0)
C2:
PF0139113=Collagen=PD(24.6=88.9),PF0139113=Collagen=PU(20.0=77.8)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGCTGGAGCTCAAGGTC
R:
GCCATTGGGACCAGAAGGAC
Band lengths:
135-189
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]