MmuEX0012116 @ mm10
Exon Skipping
Gene
ENSMUSG00000027966 | Col11a1
Description
collagen, type XI, alpha 1 [Source:MGI Symbol;Acc:MGI:88446]
Coordinates
chr3:114213218-114220718:+
Coord C1 exon
chr3:114213218-114213286
Coord A exon
chr3:114216971-114217204
Coord C2 exon
chr3:114218681-114220718
Length
234 bp
Sequences
Splice sites
3' ss Seq
TTATTATTCTTTCCTTCTAGCTT
3' ss Score
10.32
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
Exon sequences
Seq C1 exon
GTAAGAATTTCATCGTGGCCAAAGGAGAAACCAGGAAGTTGGTACAGTGAATTTAAGAGAGGAAAACTG
Seq A exon
CTTTCATATTTAGATGTGGAAGGCAATTCCATAAATATGGTACAAATGACATTCCTGAAGCTCCTGACTGCCTCTGCCCGGCAAAACTTCACCTACAATTGCCATCAGTCAGCTGCCTGGTATGACGTATTATCAGGAAGTTATGACAAAGCACTTCGATTTCTGGGATCAAATGATGAGGAAATGTCCTATGAGAACAACCCACACATCAAAGCTTTGTATGATGGCTGTGCG
Seq C2 exon
TCTCGAAAAGGCTATGAAAAGACAGTGATTGAGATCAATACTCCGAAAATTGATCAGGTACCCATCATTGATGTAATGATCAATGATTTTGGTGATCAGAACCAGAAGTTTGGATTTGAAGTCGGTCCAGCTTGCTTTCTTGGATAAGATTAGGACGAAGACCTTATGAAACCAACAGGAAAAAAAATACCTTGGTGCCACCAACCATTTTACGCCACATGCAAGTTTTGAATAAGGACGGTATAGAAAACGTGCTTAGGAATCGCTGTTGCCTACTGGAGGCACAGACAGAGGAAAGAGGTTTTGGTAGTTATGACGATGTAAGGTAGTGTGGCGGAGATGGCAATGGGGCTAATTCTTGATTCTCAACCCTCATCTCTCCTTTTCCTATTTGGATTTCGTTGGTGCTGTAGAAAACAAAAAGAGAGAAAAATATATATTCATTTAAAAAATGGTGCTCATTCCCATCCATCAAAGATAGAGTAAAATTATGTTTAATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027966_CASSETTE4
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.087 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0141013=COLFI=FE(10.4=100)
A:
PF0141013=COLFI=FE(36.3=100)
C2:
PF0141013=COLFI=PD(21.2=91.8)
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:
GGCCAAAGGAGAAACCAGGAA
R:
GCACGTTTTCTATACCGTCCT
Band lengths:
308-542
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