MmuEX6096395 @ mm10
Exon Skipping
Gene
ENSMUSG00000040690 | Col16a1
Description
collagen, type XVI, alpha 1 [Source:MGI Symbol;Acc:MGI:1095396]
Coordinates
chr4:130061712-130064899:+
Coord C1 exon
chr4:130061712-130061795
Coord A exon
chr4:130062057-130062101
Coord C2 exon
chr4:130064864-130064899
Length
45 bp
Sequences
Splice sites
3' ss Seq
GTTTTCTGTTTTGTTTTAAGGGC
3' ss Score
10.53
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
Exon sequences
Seq C1 exon
GGGGAGCCCTGCTCATCCTGTAGTTCAGGGGTCGGAGCCCAGCATCTTGGGCCCTCTCCTGGCCATGGTTTACCTGGCCTTCCG
Seq A exon
GGCACATCTGGAATTCCTGGGCCAAGAGGCCTGAAAGGGGAGAAG
Seq C2 exon
GGTAGTTTTGGCGATACAGGACCGGCTGGAGTTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040690-'41-43,'41-41,42-43
Average complexity
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(17.5=39.3),PF0139113=Collagen=PU(17.5=39.3)
A:
PF0139113=Collagen=FE(22.2=100)
C2:
PF0139113=Collagen=FE(17.5=100)
Main Skipping Isoform:
NA
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:
AGCCCTGCTCATCCTGTAGTT
R:
CGGAACTCCAGCCGGTCC
Band lengths:
116-161
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types