HsaEX6032443 @ hg19
Exon Skipping
Gene
ENSG00000060718 | COL11A1
Description
collagen, type XI, alpha 1 [Source:HGNC Symbol;Acc:2186]
Coordinates
chr1:103400005-103404644:-
Coord C1 exon
chr1:103404591-103404644
Coord A exon
chr1:103400616-103400669
Coord C2 exon
chr1:103400005-103400112
Length
54 bp
Sequences
Splice sites
3' ss Seq
TTATTTTTATCTCACTGCAGGGC
3' ss Score
9.88
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
Exon sequences
Seq C1 exon
GGTGAAATTGGTGAGCCGGGACAAAAAGGCAGCAAGGGTGACAAGGGAGAAAAT
Seq A exon
GGCCCTCCCGGTCCCCCAGGTCTTCAAGGACCAGTTGGTGCCCCTGGAATTGCT
Seq C2 exon
GGAGGTGATGGTGAACCAGGTCCTAGAGGACAGCAGGGGATGTTTGGGCAAAAAGGTGATGAGGGTGCCAGAGGCTTCCCTGGACCTCCTGGTCCAATAGGTCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000060718-'52-54,'52-53,53-54=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(20.3=77.8)
A:
PF0139113=Collagen=FE(24.6=100)
C2:
PF0139113=Collagen=FE(50.7=100)
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:
GAAATTGGTGAGCCGGGACAA
R:
GAGGTCCAGGGAAGCCTCTG
Band lengths:
139-193
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)