MmuEX6088982 @ mm10
Exon Skipping
Gene
ENSMUSG00000001506 | Col1a1
Description
collagen, type I, alpha 1 [Source:MGI Symbol;Acc:MGI:88467]
Coordinates
chr11:94941237-94941591:+
Coord C1 exon
chr11:94941237-94941281
Coord A exon
chr11:94941380-94941430
Coord C2 exon
chr11:94941547-94941591
Length
51 bp
Sequences
Splice sites
3' ss Seq
TCCCTTGGTTTCGTTTTTAGGGT
3' ss Score
12.23
5' ss Seq
ACTGCTGTA
5' ss Score
-34.86
Exon sequences
Seq C1 exon
GGAGAGCCCGGCAGTCCTGGTGAAAACGGAGCTCCTGGCCAGATG
Seq A exon
GGTCCCCGAGGTCTGCCCGGTGAGAGAGGTCGCCCTGGACCTCCTGGCACT
Seq C2 exon
GGTGCTCGCGGTAACGATGGTGCTGTTGGTGCTGCTGGACCCCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001506-'16-16,'16-15,17-16
Average complexity
C1*
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(13.3=53.3),PF0139113=Collagen=PU(8.3=33.3)
A:
PF0139113=Collagen=FE(28.3=100)
C2:
PF0139113=Collagen=FE(23.3=100),PF0139113=Collagen=PU(5.7=33.3)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGAGCCCGGCAGTCCTG
R:
GGTCCAGCAGCACCAACAG
Band lengths:
85-136
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