RnoEX0023088 @ 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
chr2:235596123-235596182
Coord C2 exon
chr2:235597656-235597763
Length
60 bp
Sequences
Splice sites
3' ss Seq
GTGTTGTGCCTCGTCCGTAGGGC
3' ss Score
10.59
5' ss Seq
AAGGTTTGT
5' ss Score
7.81
Exon sequences
Seq C1 exon
GCGTTTGGACCCTTTTAATAAGCGTCGCATCCTGGTTGTAGATAACGCTCTCATCTTGTTTTGCTTTTCTCCAGGGAGAACAAGGTGACCAGGGGCCTCGG
Seq A exon
GGCCTGCCAGGCTTCCCCACAGTTGCTGCCCTTCACAGCAATCAGATCCTCACCGTCAAG
Seq C2 exon
GGTGACCAAGGACAGGCAGGGCCTCCAGGACCCCCAGGCCCTCCTGGTCCAAGAGGTCCCCCTGGGGACACAGGAAAAGACGGGCCCCGAGGAATGCCAGGAGTACCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000050706-'0-3,'0-1,1-3
Average complexity
ME(1_1-2_2[100=99])
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=NA A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
NA
A:
PF0139113=Collagen=PU(1.6=5.0)
C2:
PF0139113=Collagen=FE(56.5=100)
Main Skipping Isoform:
ENSRNOT00000071463fB3386
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCAGGGAGAACAAGGTGACC
R:
TACTCCTGGCATTCCTCGGG
Band lengths:
137-197
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]