MmuEX6073543 @ mm10
Exon Skipping
Gene
ENSMUSG00000027966 | Col11a1
Description
collagen, type XI, alpha 1 [Source:MGI Symbol;Acc:MGI:88446]
Coordinates
chr3:114212396-114217204:+
Coord C1 exon
chr3:114212396-114212480
Coord A exon
chr3:114213218-114213286
Coord C2 exon
chr3:114216971-114217204
Length
69 bp
Sequences
Splice sites
3' ss Seq
TTCCCATTCATTTCCAACAGGTA
3' ss Score
11.58
5' ss Seq
CTGGTATGT
5' ss Score
8.14
Exon sequences
Seq C1 exon
ATGTATTCTTTAGGCACCTGCTTGCTCTCAAAAATTCTATGGCTTTCCATGACACAGCACAGCTGAATCTCGGATCTTAGAGAGT
Seq A exon
GTAAGAATTTCATCGTGGCCAAAGGAGAAACCAGGAAGTTGGTACAGTGAATTTAAGAGAGGAAAACTG
Seq C2 exon
CTTTCATATTTAGATGTGGAAGGCAATTCCATAAATATGGTACAAATGACATTCCTGAAGCTCCTGACTGCCTCTGCCCGGCAAAACTTCACCTACAATTGCCATCAGTCAGCTGCCTGGTATGACGTATTATCAGGAAGTTATGACAAAGCACTTCGATTTCTGGGATCAAATGATGAGGAAATGTCCTATGAGAACAACCCACACATCAAAGCTTTGTATGATGGCTGTGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027966-'68-76,'68-75,77-76=AN
Average complexity
A_C3
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.087 C2=0.000
Domain overlap (PFAM):
C1:
PF0141013=COLFI=PD(17.5=63.6)
A:
PF0141013=COLFI=FE(10.4=100)
C2:
PF0141013=COLFI=FE(36.3=100)
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:
GGCTTTCCATGACACAGCACA
R:
TACGTCATACCAGGCAGCTGA
Band lengths:
174-243
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