RnoEX6011534 @ rn6
Exon Skipping
Gene
ENSRNOG00000050706 | Col25a1
Description
collagen type XXV alpha 1 chain [Source:RGD Symbol;Acc:1590105]
Coordinates
chr2:235690068-235703217:+
Coord C1 exon
chr2:235690068-235690103
Coord A exon
chr2:235691788-235691841
Coord C2 exon
chr2:235703164-235703217
Length
54 bp
Sequences
Splice sites
3' ss Seq
TGTCTTTTTTTTTTTTTTAGGGT
3' ss Score
12.96
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
Exon sequences
Seq C1 exon
GGAGCATCTGGCTTAGACGGAAAGCCAGGATCCCGG
Seq A exon
GGTGCAGATGGTCCTATAGGACCCCATGGCCCTGCAGGTCCCAAAGGAGAAAGA
Seq C2 exon
GGAGAGAAAGGAGCTGTGGGAGAGCCTGGACCCCGAGGGCCCTATGGGCTACCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000050706-'34-30,'34-29,35-30=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=PD(12.3=66.7),PF0139113=Collagen=PU(16.4=91.7)
A:
PF0139113=Collagen=FE(25.4=100),PF0139113=Collagen=PU(3.2=11.1)
C2:
PF0139113=Collagen=PD(21.1=66.7),PF0139113=Collagen=PU(27.1=88.9)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCATCTGGCTTAGACGGAAAGC
R:
CCATAGGGCCCTCGGGGT
Band lengths:
80-134
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]