RnoEX6011189 @ rn6
Exon Skipping
Gene
ENSRNOG00000023148 | Col11a1
Description
collagen type XI alpha 1 chain [Source:RGD Symbol;Acc:2372]
Coordinates
chr2:217042558-217044326:+
Coord C1 exon
chr2:217042558-217042593
Coord A exon
chr2:217042687-217042740
Coord C2 exon
chr2:217044077-217044326
Length
54 bp
Sequences
Splice sites
3' ss Seq
TCATGTTTTCTTTTTAACAGGGA
3' ss Score
10.14
5' ss Seq
CCAGTAAGT
5' ss Score
9.09
Exon sequences
Seq C1 exon
GGTCCTGCTGGTCCGAAGGGTAACAAAGGATCTTCT
Seq A exon
GGACCTACTGGCCAGAAGGGTGACAGTGGTATGCCAGGACCTCCTGGGCCTCCA
Seq C2 exon
GGTCCTCCTGGAGAAGTCATACAGCCATTACCTATTTTGTCACCGAAGAAAACAAGAAGACACACTGAAAGCATCCAGGCCGACGCAGGTGATAATATTCTTGACTACTCAGATGGCATGGAGGAAATATTTGGTTCCCTCAATTCTCTGAAACAAGACATTGAACACATGAAGTTTCCCATGGGTACACAGACCAACCCAGCACGAACATGCAAAGACCTGCAGCTCAGCCACCCCGACTTCCCAGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000023148-'69-71,'69-70,70-71=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=0.845
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(17.5=100)
A:
PF0139113=Collagen=FE(27.0=100)
C2:
PF0139113=Collagen=PD(12.7=9.5),PF0141013=COLFI=PU(12.7=32.1)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTCCTGCTGGTCCGAAG
R:
TATTATCACCTGCGTCGGCCT
Band lengths:
133-187
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]