DreEX0023151 @ danRer10
Exon Skipping
Gene
ENSDARG00000020007 | col1a2
Description
collagen, type I, alpha 2 [Source:ZFIN;Acc:ZDB-GENE-030131-8415]
Coordinates
chr19:41406862-41407411:+
Coord C1 exon
chr19:41406862-41406960
Coord A exon
chr19:41407036-41407089
Coord C2 exon
chr19:41407358-41407411
Length
54 bp
Sequences
Splice sites
3' ss Seq
ATCAATTAACCTCCTTGCAGGGC
3' ss Score
7.89
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
Exon sequences
Seq C1 exon
GGTGCCGCTGGTCAAGATGGTCGCACCGGACCCCCTGGCCCAACTGGACCCAGAGGCCAGCCTGGTAACATTGGATTCCCTGGTCCCAAAGGACCTTCT
Seq A exon
GGCGAGGCTGGCAAGCCTGGTGAGAAGGGACCTGTTGGCCCTACTGGACTGAGA
Seq C2 exon
GGTGCCCCTGGTGAGAAAGGAGAGCAGGGACCCTCTGGTGCTCCTGGTTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000020007_MULTIEX1-2/24=1-4
Average complexity
C3
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(7.8=15.2),PF0139113=Collagen=PU(49.2=97.0),PF0139113=Collagen=PU(6.6=18.2)
A:
PF0139113=Collagen=FE(26.2=100),PF0139113=Collagen=FE(18.7=100)
C2:
PF0139113=Collagen=FE(18.7=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGTCAAGATGGTCGCACC
R:
TGGAAACCAGGAGCACCAGAG
Band lengths:
145-199
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]