DreEX6074023 @ danRer10
Exon Skipping
Gene
ENSDARG00000020007 | col1a2
Description
collagen, type I, alpha 2 [Source:ZFIN;Acc:ZDB-GENE-030131-8415]
Coordinates
chr19:41403779-41404927:+
Coord C1 exon
chr19:41403779-41403877
Coord A exon
chr19:41404663-41404716
Coord C2 exon
chr19:41404820-41404927
Length
54 bp
Sequences
Splice sites
3' ss Seq
TGAACTGTTTTTATGCTCAGGGT
3' ss Score
7.16
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
Exon sequences
Seq C1 exon
GGTCTTCCTGGAATTGCTGGTGCCCCTGGTTTCCCTGGCCCTAGAGGAGGCCCTGGCCCACAGGGACCTAGTGGAGCTTCTGGTCCAAGAGGTCTTGGT
Seq A exon
GGTGACCCCGGACCTGTTGGAGTGAAGGGAGATTCTGGTGTGAAGGGAGAGCCT
Seq C2 exon
GGTAGTGCTGGTCCTCAGGGGCCTCCTGGTCCTTCTGGTGAGGAGGGCAAGAGAGGGTCAACTGGAGAGCAGGGACCTACTGGACCTTTGGGACTGCGTGGACCTAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000020007-'23-19,'23-18,24-19=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(14.7=33.3),PF0139113=Collagen=FE(48.5=100)
A:
PF0139113=Collagen=FE(25.8=100),PF0139113=Collagen=PU(7.8=27.8)
C2:
PF0139113=Collagen=PD(10.6=19.4),PF0139113=Collagen=FE(54.7=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:
ACAGGGACCTAGTGGAGCTTC
R:
TCCCAAAGGTCCAGTAGGTCC
Band lengths:
133-187
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]