DreEX6074027 @ danRer10
Exon Skipping
Gene
ENSDARG00000020007 | col1a2
Description
collagen, type I, alpha 2 [Source:ZFIN;Acc:ZDB-GENE-030131-8415]
Coordinates
chr19:41402602-41403263:+
Coord C1 exon
chr19:41402602-41402700
Coord A exon
chr19:41402783-41402836
Coord C2 exon
chr19:41403165-41403263
Length
54 bp
Sequences
Splice sites
3' ss Seq
CACATTTTCTTTCCTTTCAGGGA
3' ss Score
12.03
5' ss Seq
AAGGTATAT
5' ss Score
7.84
Exon sequences
Seq C1 exon
GGTGGTCGTGGTCTTCCTGGTGAGAGAGGTCGTGTTGGCCCTGCTGGCCCAGCTGGTGCTCGCGGTGCTGATGGTAACACTGGTCCTGCTGGCCCTGCT
Seq A exon
GGACCTTTGGGCTCAGCTGGTCCTCCTGGTTTCCCTGGTGCACCTGGACCCAAG
Seq C2 exon
GGAGAACTTGGACCCGCTGGTCCCACTGGACCATCTGGAGCTCAGGGACAAAGAGGAGAGCCAGGCCCGAACGGTGCCGTTGGCCCCGTTGGACCCCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000020007-'19-15,'19-14,20-15=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=FE(41.0=100)
A:
PF0139113=Collagen=FE(21.8=100),PF0139113=Collagen=PU(18.7=77.8)
C2:
PF0139113=Collagen=PD(14.1=33.3),PF0139113=Collagen=FE(42.7=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:
CTTCCTGGTGAGAGAGGTCGT
R:
TCCTCTTTGTCCCTGAGCTCC
Band lengths:
144-198
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]