HsaEX6029692 @ hg19
Exon Skipping
Gene
ENSG00000084636 | COL16A1
Description
collagen, type XVI, alpha 1 [Source:HGNC Symbol;Acc:2193]
Coordinates
chr1:32150124-32151371:-
Coord C1 exon
chr1:32151240-32151371
Coord A exon
chr1:32150422-32150457
Coord C2 exon
chr1:32150124-32150231
Length
36 bp
Sequences
Splice sites
3' ss Seq
TGGAAATGCTTTCTCCTCAGGGC
3' ss Score
8.32
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
Exon sequences
Seq C1 exon
GGGGAGCCCTGTGAGCCGTGCCCAGCCCTGTCCAACCTTCAGGATGGGGATGTCCGTGTGGTGGCCTTGCCTGGCCCATCCGGAGAGAAGGGGGAACCTGGGCCTCCAGGCTTTGGCTTGCCAGGAAAACAG
Seq A exon
GGCAAGGCTGGAGAGCGTGGACTGAAGGGGCAGAAG
Seq C2 exon
GGTGATGCTGGGAATCCTGGAGACCCTGGAACGCCGGGCACCACAGGGCGGCCAGGACTGTCAGGAGAGCCTGGAGTTCAGGGCCCCGCGGGGCCAAAAGGAGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000084636-'37-41,'37-40,39-41=AN
Average complexity
A_S
Mappability confidence:
89%=80=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.977 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(9.5=13.6),PF0139113=Collagen=PU(46.7=63.6),PF0139113=Collagen=PU(9.7=13.6)
A:
PF0139113=Collagen=FE(18.3=100),PF0139113=Collagen=FE(17.7=100)
C2:
PF0139113=Collagen=PD(30.0=50.0),PF0139113=Collagen=FE(56.5=100)
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCTTCAGGATGGGGATGTCC
R:
TCTCCAGGATTCCCAGCATCA
Band lengths:
121-157
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)