RnoEX6011535 @ rn6
Exon Skipping
Gene
ENSRNOG00000050706 | Col25a1
Description
collagen type XXV alpha 1 chain [Source:RGD Symbol;Acc:1590105]
Coordinates
chr2:235682791-235690103:+
Coord C1 exon
chr2:235682791-235682841
Coord A exon
chr2:235684898-235684924
Coord C2 exon
chr2:235690068-235690103
Length
27 bp
Sequences
Splice sites
3' ss Seq
CTCTACTTTTCTATTCCTAGGGA
3' ss Score
8.88
5' ss Seq
AAGGTACCA
5' ss Score
7.87
Exon sequences
Seq C1 exon
ATCATAGGCCCACCAGGCCCTCCAGGTCCCCATGGCCCACCTGGTCCCATG
Seq A exon
GGACCCCATGGACTTCCTGGACCAAAG
Seq C2 exon
GGAGCATCTGGCTTAGACGGAAAGCCAGGATCCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000050706-'31-28,'31-26,32-28=AN
Average complexity
A_C2
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=FE(26.2=100),PF0139113=Collagen=PU(24.6=88.2)
A:
PF0139113=Collagen=PD(1.6=11.1),PF0139113=Collagen=FE(13.1=100)
C2:
PF0139113=Collagen=PD(12.3=66.7),PF0139113=Collagen=PU(16.4=91.7)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCTCCAGGTCCCCATGG
R:
GGGATCCTGGCTTTCCGTCTA
Band lengths:
68-95
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]