HsaEX6032421 @ hg19
Exon Skipping
Gene
ENSG00000060718 | COL11A1
Description
collagen, type XI, alpha 1 [Source:HGNC Symbol;Acc:2186]
Coordinates
chr1:103467984-103468824:-
Coord C1 exon
chr1:103468771-103468824
Coord A exon
chr1:103468303-103468347
Coord C2 exon
chr1:103467984-103468037
Length
45 bp
Sequences
Splice sites
3' ss Seq
ATACTTTTTCTTCATTGCAGGGT
3' ss Score
9.93
5' ss Seq
ATGGTATGT
5' ss Score
8.35
Exon sequences
Seq C1 exon
GGCCCACGAGGTTTGCTGGGTCCAAGGGGAACTCCAGGAGCTCCAGGGCAGCCT
Seq A exon
GGTATGGCAGGTGTAGATGGCCCCCCAGGACCAAAAGGGAACATG
Seq C2 exon
GGTCCCCAAGGGGAGCCTGGGCCTCCAGGTCAACAAGGGAATCCAGGACCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000060718-'24-26,'24-25,25-26=AN
Average complexity
A_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=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(23.6=100),PF0139113=Collagen=FE(26.6=100)
A:
PF0139113=Collagen=FE(16.1=100),PF0139113=Collagen=PU(14.3=80.0)
C2:
PF0139113=Collagen=PD(5.6=22.2),PF0139113=Collagen=FE(26.6=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCCCACGAGGTTTGCTG
R:
CTGAGGTCCTGGATTCCCTTG
Band lengths:
108-153
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
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)