DreEX0023381 @ danRer10
Exon Skipping
Gene
ENSDARG00000012593 | col5a1
Description
procollagen, type V, alpha 1 [Source:ZFIN;Acc:ZDB-GENE-041105-6]
Coordinates
chr21:6782887-6786063:+
Coord C1 exon
chr21:6782887-6782922
Coord A exon
chr21:6783021-6783074
Coord C2 exon
chr21:6785802-6786063
Length
54 bp
Sequences
Splice sites
3' ss Seq
ATCTGCTTCTGTCTCTATAGGGT
3' ss Score
10.81
5' ss Seq
CCAGTATGT
5' ss Score
5.8
Exon sequences
Seq C1 exon
GGTCCTCCTGGTCCTAAAGGAGCTAAAGGATCCAGT
Seq A exon
GGTCAGACTGGCCCGAAGGGAGAATCTGGAATACCGGGACCTCCAGGACCTCCA
Seq C2 exon
GGTCCACCAGGTGATGTCATCCACCCTATGCCTTATCAGTCTTCCCCGAAACGGGCTAAGAGAAACATTGATGCCAGCCAGGTGATGGACGAAGCAACAGATGCCAACTACAAGGACTACGAAGACGGCATGGAGGAAATATTTGGCTCTCTCAACTCTCTGAAGCTGGAGATTGAGCAGATGAAACACCCGCTGGGCACAGAGAGTAACCCCGCACGCACCTGCAAAGACCTGCAGCTGTGCCACCCAGACTTCCCAGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000012593_MULTIEX1-38/38=37-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=0.756
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(19.4=100)
A:
PF0139113=Collagen=FE(29.0=100)
C2:
PF0139113=Collagen=PD(12.9=9.1),PF0141013=COLFI=PU(12.3=29.5)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTCCTCCTGGTCCTAAAGGA
R:
TGTTGCTTCGTCCATCACCTG
Band lengths:
135-189
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]