RnoEX0023089 @ rn6
Exon Skipping
Gene
ENSRNOG00000050706 | Col25a1
Description
collagen type XXV alpha 1 chain [Source:RGD Symbol;Acc:1590105]
Coordinates
chr2:235567438-235597763:+
Coord C1 exon
chr2:235567438-235567538
Coord A exon
chr2:235596907-235596978
Coord C2 exon
chr2:235597656-235597763
Length
72 bp
Sequences
Splice sites
3' ss Seq
GACCTCACCTGCCTGATCAGATG
3' ss Score
5.22
5' ss Seq
AAGGTAGTG
5' ss Score
5.56
Exon sequences
Seq C1 exon
GCGTTTGGACCCTTTTAATAAGCGTCGCATCCTGGTTGTAGATAACGCTCTCATCTTGTTTTGCTTTTCTCCAGGGAGAACAAGGTGACCAGGGGCCTCGG
Seq A exon
ATGGTGTTTCCTAAAATCAATCATGGCTTTCTGTCTGCTGATCAGCAGCTCATTAAACGCCGGCTGATTAAG
Seq C2 exon
GGTGACCAAGGACAGGCAGGGCCTCCAGGACCCCCAGGCCCTCCTGGTCCAAGAGGTCCCCCTGGGGACACAGGAAAAGACGGGCCCCGAGGAATGCCAGGAGTACCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000050706-'0-3,'0-2,2-3
Average complexity
ME(1_1-2_2[100=99])
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=NA A=0.958 C2=1.000
Domain overlap (PFAM):
C1:
NA
A:
PF0139113=Collagen=PU(1.6=4.2)
C2:
PF0139113=Collagen=FE(56.5=100)
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATAAGCGTCGCATCCTGGTT
R:
CGTCTTTTCCTGTGTCCCCAG
Band lengths:
167-239
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]