MmuEX6096398 @ mm9
Exon Skipping
Gene
ENSMUSG00000040690 | Col16a1
Description
collagen, type XVI, alpha 1 [Source:MGI Symbol;Acc:MGI:1095396]
Coordinates
chr4:129738118-129738881:+
Coord C1 exon
chr4:129738118-129738228
Coord A exon
chr4:129738589-129738624
Coord C2 exon
chr4:129738846-129738881
Length
36 bp
Sequences
Splice sites
3' ss Seq
TCATATACCCTCTCTTTCAGGAG
3' ss Score
10.05
5' ss Seq
CGGGTATGT
5' ss Score
8.79
Exon sequences
Seq C1 exon
GGTGACCCCTGTGAAGTGTGCCCAACGCTGCCTGAAGGGTCCCAGAATTTTGTGGGGCTCCCTGGAAAACCAGGGCCTAAAGGGGAACCAGGTGATCCTGCTCCAGCCTGG
Seq A exon
GAGGGCCTAGGAACTGTGGGACTGAAAGGTGACCGG
Seq C2 exon
GGAGATCCAGGCATCCAAGGAATGAAAGGAGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040690-'27-28,'27-27,28-28=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=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(14.3=21.6),PF0139113=Collagen=PU(41.3=70.3)
A:
PF0139113=Collagen=FE(17.5=100)
C2:
PF0139113=Collagen=FE(17.5=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCTGTGAAGTGTGCCCAAC
R:
TCCTTGGATGCCTGGATCTCC
Band lengths:
126-162
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: