RnoEX0022984 @ rn6
Exon Skipping
Gene
ENSRNOG00000003897 | Col1a1
Description
collagen type I alpha 1 chain [Source:RGD Symbol;Acc:61817]
Coordinates
chr10:82755386-82756254:+
Coord C1 exon
chr10:82755386-82755484
Coord A exon
chr10:82755694-82755801
Coord C2 exon
chr10:82756147-82756254
Length
108 bp
Sequences
Splice sites
3' ss Seq
TGATCTTGTTTACCAAACAGGGT
3' ss Score
6.96
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
Exon sequences
Seq C1 exon
GGCGAGAGAGGTTTCCCTGGTGAACGTGGTGTACAAGGTCCCCCAGGTCCTGCTGGTCCCCGAGGAAACAATGGTGCCCCCGGCAACGATGGTGCCAAG
Seq A exon
GGTGATACTGGTGCCCCCGGAGCTCCTGGTAGCCAGGGTGCCCCCGGTCTTCAGGGAATGCCTGGTGAACGTGGTGCAGCTGGTCTTCCAGGTCCTAAGGGTGACAGA
Seq C2 exon
GGTGATGCTGGTCCCAAAGGTGCTGATGGTTCTCCTGGCAAAGATGGCGTCCGTGGTCTGACTGGTCCCATTGGTCCTCCTGGCCCTGCTGGTGCCCCTGGTGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003897-'59-41,'59-39,62-41
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=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PU(45.0=81.8)
A:
PF0139113=Collagen=PD(51.7=86.1),PF0139113=Collagen=PU(38.7=80.6)
C2:
PF0139113=Collagen=FE(46.7=100),PF0139113=Collagen=PU(3.3=5.6)
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:
CGAGAGAGGTTTCCCTGGTGA
R:
CAGCAGGGCCAGGAGGAC
Band lengths:
188-296
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]