RnoALTA0009857-2/2 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000020525 | Col5a3
Description
collagen type V alpha 3 chain [Source:RGD Symbol;Acc:70922]
Coordinates
chr8:21826532-21831668:-
Coord C1 exon
chr8:21831526-21831668
Coord A exon
chr8:21826691-21826693
Coord C2 exon
chr8:21826532-21826690
Length
3 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
ACCCCGGTGTCTCTCTGCAGCAG
3' ss Score
9.83
Exon sequences
Seq C1 exon
CCCGGGAAGACCAGTCCACATCCCCCTTGGCCTTGGTGCACCAGGCCCCGCTGGGATGAGAAGCTGCCGGAGACTGGACCAGCTTCAGGCCGGCCTCTGCCTGCTCCTGGCCTCCCTACAACTCGTGTCCTGGACGCTGGCTG
Seq A exon
CAG
Seq C2 exon
AACCTGTGGATGTATTGGAAACCTTGGGTGTGCATAGGGACAAGGCTGGGGTGACCAAAGGGCCTGGCTTCTGCCCCCAGAGGATTCCACAGGGTGACCGAGCATTCAGGGTGGGCAAGTCCAGCCTTCTCAGCGTCCCCACATGGCAGCTCTTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020525-0-1,0-0-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.055
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTCCCTACAACTCGTGTCCT
R:
CTTTGGTCACCCCAGCCTTG
Band lengths:
93-96
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]