RnoEX6011539 @ rn6
Exon Skipping
Gene
ENSRNOG00000050706 | Col25a1
Description
collagen type XXV alpha 1 chain [Source:RGD Symbol;Acc:1590105]
Coordinates
chr2:235664470-235667657:+
Coord C1 exon
chr2:235664470-235664514
Coord A exon
chr2:235666690-235666734
Coord C2 exon
chr2:235667580-235667657
Length
45 bp
Sequences
Splice sites
3' ss Seq
GTTTTGTTTTGTGGCCAAAGGGT
3' ss Score
4.41
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
Exon sequences
Seq C1 exon
GGGAAGCAAGGTGAATCAGGAGCTAGAGGCCCCAAGGGGTCAAAG
Seq A exon
GGTGATCGTGGAGACAAAGGAGACTCTGGAGCTCTGGGACCACGG
Seq C2 exon
GGTCCTCCTGGGCAAAAGGGAGATCCAGGAGCCACTGAGATCATAGACTACAATGGCAACCTCCATGAGGCCTTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000050706-'19-18,'19-17,21-18=AN
Average complexity
A_C1
Mappability confidence:
89%=100=75%
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(24.6=100)
A:
PF0139113=Collagen=FE(24.6=100)
C2:
PF0139113=Collagen=PD(21.1=42.9)
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:
GGGAAGCAAGGTGAATCAGGA
R:
CCTCATGGAGGTTGCCATTGT
Band lengths:
115-160
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]