HsaEX0016244 @ hg19
Exon Skipping
Gene
ENSG00000060718 | COL11A1
Description
collagen, type XI, alpha 1 [Source:HGNC Symbol;Acc:2186]
Coordinates
chr1:103444938-103449747:-
Coord C1 exon
chr1:103449694-103449747
Coord A exon
chr1:103445153-103445168
Coord C2 exon
chr1:103444938-103444991
Length
16 bp
Sequences
Splice sites
3' ss Seq
TGTGCTTTCAATGCTTCCAGGAT
3' ss Score
9.05
5' ss Seq
ATTGTAAGT
5' ss Score
8.54
Exon sequences
Seq C1 exon
GGAAAACTTGGAGTTCCAGGATTACCAGGATATCCAGGAAGACAAGGTCCAAAG
Seq A exon
GATTTCAGATGTCATT
Seq C2 exon
GGTTCCACTGGATTCCCTGGGTTTCCAGGTGCCAATGGAGAGAAAGGTGCACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000060718-'36-38,'36-37,37-38
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.976 A=0.000 C2=0.858
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(16.8=100)
A:
PF0139113=Collagen=PD(3.3=33.3)
C2:
PF0139113=Collagen=FE(16.8=100)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAGTTCCAGGATTACCAGG
R:
GCACCTTTCTCTCCATTGGCA
Band lengths:
96-112
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)