RnoEX6011532 @ rn6
Exon Skipping
Gene
ENSRNOG00000050706 | Col25a1
Description
collagen type XXV alpha 1 chain [Source:RGD Symbol;Acc:1590105]
Coordinates
chr2:235703164-235709313:+
Coord C1 exon
chr2:235703164-235703217
Coord A exon
chr2:235708683-235708736
Coord C2 exon
chr2:235709236-235709313
Length
54 bp
Sequences
Splice sites
3' ss Seq
TTAAACCCTTGTATCCACAGGGG
3' ss Score
9.59
5' ss Seq
CAGGGCGCT
5' ss Score
-7.17
Exon sequences
Seq C1 exon
GGAGAGAAAGGAGCTGTGGGAGAGCCTGGACCCCGAGGGCCCTATGGGCTACCT
Seq A exon
GGGGAAAAGGGAAAGAAAGGCAAAAAAGGGCCTAAAGGGGAGAAAGGAGAACAG
Seq C2 exon
GGATTCCGTGGCGTTAAGGGGGAAAAGGGGGAGCCGGGCCAGCCTGGCCTGGATGGGCTGGATGCTCCTTGCCAATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000050706-'36-35,'36-33,40-35=AN
Average complexity
A_C1
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=0.952
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(21.1=66.7),PF0139113=Collagen=PU(27.1=88.9)
A:
PF0139113=Collagen=FE(27.0=100)
C2:
PF0139113=Collagen=PD(36.5=88.5)
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:
GGAGAGAAAGGAGCTGTGGGA
R:
GCATCCAGCCCATCCAGG
Band lengths:
119-173
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]