RnoEX6049271 @ rn6
Exon Skipping
Gene
ENSRNOG00000003897 | Col1a1
Description
collagen type I alpha 1 chain [Source:RGD Symbol;Acc:61817]
Coordinates
chr10:82752229-82752793:+
Coord C1 exon
chr10:82752229-82752327
Coord A exon
chr10:82752455-82752508
Coord C2 exon
chr10:82752686-82752793
Length
54 bp
Sequences
Splice sites
3' ss Seq
CTCTTTCTGTCCCTACACAGGGT
3' ss Score
11.13
5' ss Seq
CCCGTAAGT
5' ss Score
9.09
Exon sequences
Seq C1 exon
GGTGCTCCTGGTATTGCTGGTGCTCCTGGCTTCCCTGGTGCCCGAGGCCCCTCTGGACCTCAGGGCCCCAGCGGCGCTCCTGGTCCCAAAGGCAACAGT
Seq A exon
GGTGAACCTGGTGCCCCTGGCAACAAAGGAGACACTGGTGCCAAAGGAGAACCC
Seq C2 exon
GGCCCTGCTGGAGTTCAAGGTCCCCCTGGCCCTGCTGGAGAAGAAGGAAAACGAGGAGCCCGTGGTGAGCCTGGACCTAGCGGCCTGCCCGGACCTCCTGGCGAGCGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003897-'33-23,'33-22,35-23=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(20.0=42.4)
A:
NO
C2:
PF0139113=Collagen=PU(18.3=30.6)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGTATTGCTGGTGCTCCTG
R:
TTCCTTCTTCTCCAGCAGGGC
Band lengths:
141-195
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]