RnoEX0023094 @ rn6
Exon Skipping
Gene
ENSRNOG00000050706 | Col25a1
Description
collagen type XXV alpha 1 chain [Source:RGD Symbol;Acc:1590105]
Coordinates
chr2:235691788-235704498:+
Coord C1 exon
chr2:235691788-235691841
Coord A exon
chr2:235703164-235703217
Coord C2 exon
chr2:235704462-235704498
Length
54 bp
Sequences
Splice sites
3' ss Seq
TTTCTGCTTTTTCATTTTAGGGA
3' ss Score
12.04
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
Exon sequences
Seq C1 exon
GGTGCAGATGGTCCTATAGGACCCCATGGCCCTGCAGGTCCCAAAGGAGAAAGA
Seq A exon
GGAGAGAAAGGAGCTGTGGGAGAGCCTGGACCCCGAGGGCCCTATGGGCTACCT
Seq C2 exon
GGCAAAGATGGAGAGCCTGGTCTTGATGTAAGTAATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000050706-'35-31,'35-30,36-31
Average complexity
C1
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(25.4=100),PF0139113=Collagen=PU(3.2=11.1)
A:
PF0139113=Collagen=PD(21.1=66.7),PF0139113=Collagen=PU(27.1=88.9)
C2:
PF0139113=Collagen=FE(18.2=100),PF0139113=Collagen=FE(19.4=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGCAGATGGTCCTATAGGA
R:
TACATCAAGACCAGGCTCTCCA
Band lengths:
84-138
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]