DreEX6074021 @ danRer10
Exon Skipping
Gene
ENSDARG00000020007 | col1a2
Description
collagen, type I, alpha 2 [Source:ZFIN;Acc:ZDB-GENE-030131-8415]
Coordinates
chr19:41406503-41406960:+
Coord C1 exon
chr19:41406503-41406601
Coord A exon
chr19:41406685-41406738
Coord C2 exon
chr19:41406862-41406960
Length
54 bp
Sequences
Splice sites
3' ss Seq
ATCACCTTTCATTTTTTCAGGGT
3' ss Score
10.81
5' ss Seq
TCTGTGAGT
5' ss Score
7
Exon sequences
Seq C1 exon
GGCATGCCTGGTCCTCGTGGTGGTGTTGGTGCACCTGGAGCCCGTGGACCTCCTGGAGATGCTGGTCGTGCTGGTGAGGCTGGTCTTGTTGGAGCCAGA
Seq A exon
GGTCTCCCTGGTAGCCCTGGCAGTTCTGGACCCCCTGGAAAGGAAGGACCTTCT
Seq C2 exon
GGTGCCGCTGGTCAAGATGGTCGCACCGGACCCCCTGGCCCAACTGGACCCAGAGGCCAGCCTGGTAACATTGGATTCCCTGGTCCCAAAGGACCTTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000020007-'28-23,'28-22,29-23=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(4.7=9.1),PF0139113=Collagen=FE(47.1=100),PF0139113=Collagen=PU(2.3=6.1)
A:
PF0139113=Collagen=FE(25.0=100),PF0139113=Collagen=FE(19.8=100)
C2:
PF0139113=Collagen=PD(7.8=15.2),PF0139113=Collagen=PU(49.2=97.0),PF0139113=Collagen=PU(6.6=18.2)
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:
GACCTCCTGGAGATGCTGGTC
R:
TGGGACCAGGGAATCCAATGT
Band lengths:
141-195
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]