MmuEX6093874 @ mm10
Exon Skipping
Gene
ENSMUSG00000045672 | Col27a1
Description
collagen, type XXVII, alpha 1 [Source:MGI Symbol;Acc:MGI:2672118]
Coordinates
chr4:63326124-63328703:+
Coord C1 exon
chr4:63326124-63326150
Coord A exon
chr4:63327830-63327895
Coord C2 exon
chr4:63328532-63328703
Length
66 bp
Sequences
Splice sites
3' ss Seq
CCTTGTCTTTTCTTACACAGCAG
3' ss Score
7.97
5' ss Seq
GAGGTACTG
5' ss Score
7.67
Exon sequences
Seq C1 exon
GGCCCTCCTTGGCATCCCATCCAGTTT
Seq A exon
CAGCAAGATGACCTTGGAGCAGCTTTCCAGACATGGATGGATGCTCAAGGAGCCGTCAGATCGGAG
Seq C2 exon
CAGGGGTACAGCTATCCGGACCAGCTGGCGCTAGACCAGGGAGGGGAGATCTTCAAAACCTTACACTACCTCAGCAACCTCATCCAGAGCATTAAGACACCCTTGGGCACCAAGGAGAACCCAGCCCGGGTCTGCCGGGACCTCATGGACTGTGAGCAGAGGATGGCGGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000045672-'83-90,'83-86,91-90=AN
Average complexity
A_C1
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=0.500 C2=0.070
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(7.9=55.6)
A:
NO
C2:
PF0141013=COLFI=PU(38.6=47.4)
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:
CCTTGGCATCCCATCCAGTTT
R:
TCTGCTCACAGTCCATGAGGT
Band lengths:
181-247
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