DreEX0023152 @ danRer10
Exon Skipping
Gene
ENSDARG00000020007 | col1a2
Description
collagen, type I, alpha 2 [Source:ZFIN;Acc:ZDB-GENE-030131-8415]
Coordinates
chr19:41411912-41412556:+
Coord C1 exon
chr19:41411912-41411965
Coord A exon
chr19:41412102-41412209
Coord C2 exon
chr19:41412449-41412556
Length
108 bp
Sequences
Splice sites
3' ss Seq
AATTGTATTATTTTAACCAGGGT
3' ss Score
5.21
5' ss Seq
TCTGTATGT
5' ss Score
3.86
Exon sequences
Seq C1 exon
GGAAGCCCTGGCAATGATGGACCTCCTGGCCGTCCTGGTGCTGCTGGAATTAAG
Seq A exon
GGTGACCGTGGTGAGCCTGGTTCCCCTGGAACTGCTGGACCTGTTGGTGCTCCTGGACCCAATGGACCATCAGGCGCTGTTGGCAGACCTGGAAACCGTGGTGAATCT
Seq C2 exon
GGCCCTGCTGGACCTCGTGGTGAGAAGGGTGTTGCTGGAGAAAAAGGAGACAGGGGTATGAAGGGACTTCGTGGACATCCTGGTCTGCAGGGAATGCCCGGACCTAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000020007_MULTIEX1-20/24=19-22
Average complexity
C2
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(24.6=100),PF0139113=Collagen=PU(10.5=44.4)
A:
PF0139113=Collagen=PD(15.9=30.6),PF0139113=Collagen=FE(46.1=100)
C2:
PF0139113=Collagen=PD(15.8=33.3),PF0139113=Collagen=FE(49.3=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:
GGAAGCCCTGGCAATGATGG
R:
GTTAGGTCCGGGCATTCC
Band lengths:
162-270
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]