MmuEX0012163 @ mm10
Exon Skipping
Gene
ENSMUSG00000040690 | Col16a1
Description
collagen, type XVI, alpha 1 [Source:MGI Symbol;Acc:MGI:1095396]
Coordinates
chr4:130079164-130079717:+
Coord C1 exon
chr4:130079164-130079280
Coord A exon
chr4:130079492-130079533
Coord C2 exon
chr4:130079631-130079717
Length
42 bp
Sequences
Splice sites
3' ss Seq
GCCTCTCTTGTCTACCACAGTGC
3' ss Score
8.96
5' ss Seq
AGGGTGCGT
5' ss Score
7.22
Exon sequences
Seq C1 exon
AGCATCTGTGGTGACTGTGCCCAGGGCCAGACGGCTCATCCAGCCTTCCTTCTGGAGAAAGGAGAAAAGGGGGACCAGGGCATCCCTGGCGTGCCAGGTTTTGACAACTGTGCCAGG
Seq A exon
TGCTTCATAGAGAGGGAACGCCCAAGAGCTGAGGAGGCCAGG
Seq C2 exon
GGAGACAACAGTGAGGGAGAACCTGGCTGTTCTGGGAGCCCTGGCCTGCCTGGTCCTCCAGGGATGCCAGGCCAAAGAGGAGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040690-'67-76,'67-75,68-76
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.786 A=0.952 C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
PF0139113=Collagen=PU(2.1=7.1)
C2:
PF0139113=Collagen=PU(43.8=96.6)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATCTGTGGTGACTGTGCCC
R:
GAACAGCCAGGTTCTCCCTCA
Band lengths:
147-189
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