DreEX0023366 @ danRer10
Exon Skipping
Gene
ENSDARG00000012593 | col5a1
Description
procollagen, type V, alpha 1 [Source:ZFIN;Acc:ZDB-GENE-041105-6]
Coordinates
chr21:6755009-6771678:+
Coord C1 exon
chr21:6755009-6755116
Coord A exon
chr21:6757631-6757684
Coord C2 exon
chr21:6771571-6771678
Length
54 bp
Sequences
Splice sites
3' ss Seq
AACGGTATGTTTGTGTGCAGGGC
3' ss Score
6.94
5' ss Seq
ATGGTACGG
5' ss Score
8.21
Exon sequences
Seq C1 exon
GGTGCTGATGGAGAGCCCGGTCCCAGAGGTCAGCAGGGTCTGTTCGGACAGAAGGGAGATGAAGGTTCGAGAGGTTTCCCAGGACCACCTGGACCTGTTGGCCTTCAG
Seq A exon
GGCTTGCCTGGACCCCCTGGTGAGAAAGGAGAGACTGGTGACGTCGGTCAGATG
Seq C2 exon
GGTCATCCTGGTCTCATCGGACTTATTGGACCTCCAGGAGAACAGGGAGAGAAGGGAGACCGAGGCTTGCCAGGTCCACAGGGAACTTCAGGACCTAAAGGAGACAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000012593_MULTIEX1-24/38=23-35
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(48.6=100),PF0139113=Collagen=PU(31.3=70.3)
A:
PF0139113=Collagen=FE(24.3=100),PF0139113=Collagen=FE(21.7=100)
C2:
PF0139113=Collagen=PD(4.9=10.8),PF0139113=Collagen=FE(53.7=100),PF0139113=Collagen=PU(8.1=13.5)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAGGTCAGCAGGGTCTGTTC
R:
CTCTCCCTGTTCTCCTGGAGG
Band lengths:
135-189
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]