RnoEX6011542 @ rn6
Exon Skipping
Gene
ENSRNOG00000050706 | Col25a1
Description
collagen type XXV alpha 1 chain [Source:RGD Symbol;Acc:1590105]
Coordinates
chr2:235596907-235600608:+
Coord C1 exon
chr2:235596907-235596978
Coord A exon
chr2:235597656-235597763
Coord C2 exon
chr2:235600573-235600608
Length
108 bp
Sequences
Splice sites
3' ss Seq
ATTTCCTTCCTCCATTCCAGGGT
3' ss Score
10.88
5' ss Seq
CCCGTGAGT
5' ss Score
8.4
Exon sequences
Seq C1 exon
ATGGTGTTTCCTAAAATCAATCATGGCTTTCTGTCTGCTGATCAGCAGCTCATTAAACGCCGGCTGATTAAG
Seq A exon
GGTGACCAAGGACAGGCAGGGCCTCCAGGACCCCCAGGCCCTCCTGGTCCAAGAGGTCCCCCTGGGGACACAGGAAAAGACGGGCCCCGAGGAATGCCAGGAGTACCC
Seq C2 exon
GGTGAACCAGGAAAACCAGGAGAACAAGGCTTGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000050706-'2-4,'2-3,3-4=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.958 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PU(1.6=4.2)
A:
PF0139113=Collagen=FE(56.5=100)
C2:
PF0139113=Collagen=FE(17.7=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGTGTTTCCTAAAATCAATCATGGC
R:
CATCAAGCCTTGTTCTCCTGGT
Band lengths:
107-215
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]