DreEX0023090 @ danRer10
Exon Skipping
Gene
ENSDARG00000012405 | col1a1a
Description
collagen, type I, alpha 1a [Source:ZFIN;Acc:ZDB-GENE-030131-9102]
Coordinates
chr3:23104237-23104872:+
Coord C1 exon
chr3:23104237-23104290
Coord A exon
chr3:23104403-23104510
Coord C2 exon
chr3:23104593-23104872
Length
108 bp
Sequences
Splice sites
3' ss Seq
TTCTCTTATTGTGTTAATAGGGC
3' ss Score
7.59
5' ss Seq
GCTGTGGGT
5' ss Score
0.7
Exon sequences
Seq C1 exon
GGACCCTCTGGAGAGTCTGGACCCGCTGGTGCTTCTGGACCCGCTGGACCAAGA
Seq A exon
GGCCCAGCTGGATCTGCTGGATCAGCTGGTAAGGATGGTATGAGTGGCCTCCCTGGACCCATTGGACCTCCTGGACCCCGTGGTCGCAATGGAGAAATTGGACCAGCT
Seq C2 exon
GGACCTCCTGGACCTCCCGGCCCCCCTGGAGCACCTGGACCCTCTGGTGGTGGATTCGACATTGGCTTCATTGCCCAGCCACAGGAGAAGGCCCCTGATCCCTTCCGTCACTTCCGTGCCGACGATGCCAATGTGATGCGCGACCGTGATCTTGAGGTTGACACCACCCTTAAGTCCCTGAGCCAGCAGATTGAGAGCATCATCAGCCCAGACGGCACCAAGAAGAACCCTGCCCGCACTTGCCGTGACCTGAAGATGTGCCACCCAGACTGGAAGAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000012405_MULTIEX1-40/40=39-C2
Average complexity
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=0.856
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(19.4=77.8),PF0139113=Collagen=PU(11.3=38.9)
A:
PF0139113=Collagen=FE(57.4=100)
C2:
PF0139113=Collagen=PD(27.9=18.1),PF0141013=COLFI=PU(12.3=28.7)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACCCTCTGGAGAGTCTGGAC
R:
GCTCTCAATCTGCTGGCTCAG
Band lengths:
251-359
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]