HsaEX6032454 @ hg19
Exon Skipping
Gene
ENSG00000060718 | COL11A1
Description
collagen, type XI, alpha 1 [Source:HGNC Symbol;Acc:2186]
Coordinates
chr1:103363681-103364550:-
Coord C1 exon
chr1:103364497-103364550
Coord A exon
chr1:103364222-103364329
Coord C2 exon
chr1:103363681-103363734
Length
108 bp
Sequences
Splice sites
3' ss Seq
CATATTTTACTTTCTAACAGGGG
3' ss Score
9.05
5' ss Seq
GTGGTGAGC
5' ss Score
6.64
Exon sequences
Seq C1 exon
GGTCCTCCTGGAGCTGCAGGTGCAGAGGGAAGACAAGGTGAAAAAGGTGCTAAG
Seq A exon
GGGGAAGCAGGTGCAGAAGGTCCTCCTGGAAAAACCGGCCCAGTCGGTCCTCAGGGACCTGCAGGAAAGCCTGGTCCAGAAGGTCTTCGGGGCATCCCTGGTCCTGTG
Seq C2 exon
GGAGAACAAGGTCTCCCTGGAGCTGCAGGCCAAGATGGACCACCTGGTCCTATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000060718-'63-65,'63-64,64-65=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=PU(15.9=61.1)
A:
PF0139113=Collagen=FE(50.7=100),PF0139113=Collagen=PU(42.1=88.9)
C2:
PF0139113=Collagen=FE(24.6=100),PF0139113=Collagen=FE(22.4=100),PF0139113=Collagen=PU(6.3=27.8)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCTCCTGGAGCTGCAGG
R:
AGGTGGTCCATCTTGGCCTG
Band lengths:
98-206
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)