MmuEX6088963 @ mm10
Exon Skipping
Gene
ENSMUSG00000001506 | Col1a1
Description
collagen, type I, alpha 1 [Source:MGI Symbol;Acc:MGI:88467]
Coordinates
chr11:94949720-94950573:+
Coord C1 exon
chr11:94949720-94949773
Coord A exon
chr11:94950097-94950201
Coord C2 exon
chr11:94950291-94950573
Length
105 bp
Sequences
Splice sites
3' ss Seq
AACCATCTCTCTATCCCTAGGGT
3' ss Score
11.1
5' ss Seq
CCTGCTGTA
5' ss Score
-35.96
Exon sequences
Seq C1 exon
GGTTCTCCTGGTGAACAAGGCCCCTCTGGAGCTTCAGGTCCTGCAGGCCCCCGG
Seq A exon
GGTCCCCCTGGCTCTGCTGGTTCTCCTGGCAAAGACGGACTCAACGGTCTCCCTGGCCCCATTGGTCCCCCTGGTCCTCGAGGTCGCACTGGTGACAGCGGCCCT
Seq C2 exon
GGTCCCCCCGGCCCTCCTGGACCCCCTGGCCCTCCTGGACCTCCCAGTGGCGGTTATGACTTCAGCTTCCTGCCTCAGCCACCTCAAGAGAAGTCTCAAGATGGTGGCCGCTACTACCGGGCCGATGATGCTAACGTGGTTCGTGACCGTGACCTTGAGGTGGACACCACCCTCAAGAGCCTGAGTCAGCAGATTGAGAACATCCGCAGCCCCGAAGGCAGCCGCAAGAACCCTGCCCGCACATGCCGCGACCTCAAGATGTGCCACTCTGACTGGAAGAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001506-'67-57,'67-56,68-57
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=0.863
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(23.3=77.8),PF0139113=Collagen=PU(12.7=44.4)
A:
PF0139113=Collagen=FE(55.6=100)
C2:
PF0139113=Collagen=PD(27.0=17.9),PF0141013=COLFI=PU(12.3=28.4)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTCTCCTGGTGAACAAGGCC
R:
CTGACTCAGGCTCTTGAGGGT
Band lengths:
242-347
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