RnoEX6016125 @ rn6
Exon Skipping
Gene
ENSRNOG00000008749 | Col5a1
Description
collagen type V alpha 1 chain [Source:RGD Symbol;Acc:70920]
Coordinates
chr3:6545169-6547870:+
Coord C1 exon
chr3:6545169-6545222
Coord A exon
chr3:6546402-6546509
Coord C2 exon
chr3:6547781-6547870
Length
108 bp
Sequences
Splice sites
3' ss Seq
AACATCGTCTCTCCCCATAGGGT
3' ss Score
11.9
5' ss Seq
AAGGTAAGT
5' ss Score
11
Exon sequences
Seq C1 exon
GGTTTCCAAGGCAAGACTGGCCCTCCAGGCCCTCCAGGAGTGGTTGGCCCTCAG
Seq A exon
GGTCCCACAGGCGAGACGGGTCCCATGGGAGAGCGTGGCCACCCTGGTCCTCCAGGCCCCCCTGGTGAACAGGGCCTCCCAGGTGCTGCTGGGAAAGAAGGGACGAAG
Seq C2 exon
GGTGACCCAGGTCCTGCTGGCCTCCCTGGGAAGGATGGACCTCCAGGATTGCGTGGATTCCCTGGGGACCGAGGGCTCCCCGGCCCCGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008749-'61-48,'61-47,62-48=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(19.4=77.8),PF0139113=Collagen=FE(17.9=100)
A:
PF0139113=Collagen=FE(36.8=100),PF0139113=Collagen=PU(6.9=13.9)
C2:
PF0139113=Collagen=PD(29.5=93.3),PF0139113=Collagen=FE(40.3=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:
GGTTTCCAAGGCAAGACTGG
R:
TCCCCAGGGAATCCACGC
Band lengths:
122-230
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]