Special

MmuEX0012167 @ mm10

Exon Skipping

Gene
Description
collagen, type XVI, alpha 1 [Source:MGI Symbol;Acc:MGI:1095396]
Coordinates
chr4:130072826-130073293:+
Coord C1 exon
chr4:130072826-130072885
Coord A exon
chr4:130073069-130073116
Coord C2 exon
chr4:130073240-130073293
Length
48 bp
Sequences
Splice sites
3' ss Seq
CGACCCCGACTCCTACCCAGGGT
3' ss Score
3.68
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
Exon sequences
Seq C1 exon
GGTGAACCGGGAGAGTGTTCCTGCCCTTCTCGGGGAGAGCCCATCTTCTCGGGCATGCCG
Seq A exon
GGTGCTCCGGGACTATGGATGGGCAGCTCCTCGCAGCCGGGCCCGCAG
Seq C2 exon
GGTCCCCCAGGTGTCCCCGGACCACCAGGTCCCCCCGGAATGCCTGGATTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040690_CASSETTE2
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=PU(12.7=40.0)
A:
PF0139113=Collagen=FE(23.8=100)
C2:
PF0139113=Collagen=FE(27.0=100)


Main Inclusion Isoform:


Main Skipping Isoform:


Other Inclusion Isoforms:


Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
HIGH PSI
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAACCGGGAGAGTGTTCCTG
R:
CTGCAATCCAGGCATTCCGG
Band lengths:
112-160
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]


SPECIAL DATASETS

  • Pre-implantation embryo development
  • 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