RnoEX6049269 @ rn6
Exon Skipping
Gene
ENSRNOG00000003897 | Col1a1
Description
collagen type I alpha 1 chain [Source:RGD Symbol;Acc:61817]
Coordinates
chr10:82755254-82755801:+
Coord C1 exon
chr10:82755254-82755298
Coord A exon
chr10:82755386-82755484
Coord C2 exon
chr10:82755694-82755801
Length
99 bp
Sequences
Splice sites
3' ss Seq
GCCCTTTCCTTCCTCTCTAGGGC
3' ss Score
12.65
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
Exon sequences
Seq C1 exon
GGTGTTCCTGGAGACCTTGGTGCCCCTGGACCCTCTGGCGCAAGA
Seq A exon
GGCGAGAGAGGTTTCCCTGGTGAACGTGGTGTACAAGGTCCCCCAGGTCCTGCTGGTCCCCGAGGAAACAATGGTGCCCCCGGCAACGATGGTGCCAAG
Seq C2 exon
GGTGATACTGGTGCCCCCGGAGCTCCTGGTAGCCAGGGTGCCCCCGGTCTTCAGGGAATGCCTGGTGAACGTGGTGCAGCTGGTCTTCCAGGTCCTAAGGGTGACAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003897-'58-39,'58-38,59-39=AN
Average complexity
A_S
Mappability confidence:
88%=100=75%
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:
NO
A:
PF0139113=Collagen=PU(45.0=81.8)
C2:
PF0139113=Collagen=PD(51.7=86.1),PF0139113=Collagen=PU(38.7=80.6)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTTCCTGGAGACCTTGGTG
R:
CTGTCACCCTTAGGACCTGGA
Band lengths:
151-250
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]