MmuALTA1000714-2/2 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000001506 | Col1a1
Description
collagen, type I, alpha 1 [Source:MGI Symbol;Acc:MGI:88467]
Coordinates
chr11:94944598-94944805:+
Coord C1 exon
chr11:94944598-94944651
Coord A exon
chr11:94944752-94944779
Coord C2 exon
chr11:94944780-94944805
Length
28 bp
Sequences
Splice sites
5' ss Seq
GCTGTAAGT
5' ss Score
8.56
3' ss Seq
CTGCCTCTTCTCTACCACAGGGT
3' ss Score
10.39
Exon sequences
Seq C1 exon
GGTCCTGCTGGCAAAGATGGAGAAGCTGGAGCTCAGGGAGCCCCTGGCCCTGCT
Seq A exon
GGTCCTGCTGGTGAGAGAGGTGAACAAG
Seq C2 exon
GTCCCGCTGGCTCCCCTGGATTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001506-38-33,38-32-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(18.3=100)
A:
NA
C2:
PF0139113=Collagen=FE(18.3=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGGCAAAGATGGAGAAGCT
R:
TGGAATCCAGGGGAGCCAG
Band lengths:
73-101
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