Special

RnoEX6020699 @ rn6

Exon Skipping

Gene
Description
collagen type XX alpha 1 chain [Source:RGD Symbol;Acc:1563901]
Coordinates
chr3:176523877-176524301:+
Coord C1 exon
chr3:176523877-176523912
Coord A exon
chr3:176523993-176524059
Coord C2 exon
chr3:176524134-176524301
Length
67 bp
Sequences
Splice sites
3' ss Seq
AAATCATGTCCTCCTTCTAGGGA
3' ss Score
9.15
5' ss Seq
GGAGTGAGT
5' ss Score
6.05
Exon sequences
Seq C1 exon
GGTCTACCAGGGTCCAAAGGTGAACGAGGAGAGAAG
Seq A exon
GGAGAGCCACAGTCCCTTGCCACCATCTTCCAGCTGGTGAGCCAGGCCTGCGAGTCAGCCATACGGA
Seq C2 exon
CACACGTGATGAAGCTGAATTCCTTCCTTCATGAGAATGCCCGTCCCCCGATGCCCTTCATGGCAGAGACAGCCAAGCTAAGCAGACCCAGAGCTATAGATCCTGGATTACACAACAAGGCTCTACTTCCTGGAGACTGGGGACATATCCTCCACCATGAGGATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010326-'48-50,'48-49,51-50=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact

ORF disruption upon sequence exclusion

No structure available
Features
Disorder rate (Iupred):
  C1=1.000 A=0.435 C2=0.877
Domain overlap (PFAM):

C1:
PF0139113=Collagen=FE(18.6=100)
A:
PF0139113=Collagen=PD(6.8=17.4)
C2:
NO


Main Inclusion Isoform:


Main Skipping Isoform:
NA


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTCTACCAGGGTCCAAAGGT
R:
ATGTCCCCAGTCTCCAGGAAG
Band lengths:
182-249
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]