HsaEX6017361 @ hg19
Exon Skipping
Gene
ENSG00000168542 | COL3A1
Description
collagen, type III, alpha 1 [Source:HGNC Symbol;Acc:2201]
Coordinates
chr2:189864196-189866176:+
Coord C1 exon
chr2:189864196-189864303
Coord A exon
chr2:189864568-189864621
Coord C2 exon
chr2:189866123-189866176
Length
54 bp
Sequences
Splice sites
3' ss Seq
CATTGGCTTTTATTTGACAGGGT
3' ss Score
6.67
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
Exon sequences
Seq C1 exon
GGTGCTGCTGGTCCTCCTGGGCCACCTGGTGCTGCTGGTACTCCTGGTCTGCAAGGAATGCCTGGAGAAAGAGGAGGTCTTGGAAGTCCTGGTCCAAAGGGTGACAAG
Seq A exon
GGTGAACCAGGCGGTCCAGGTGCTGATGGTGTCCCAGGGAAAGATGGCCCAAGG
Seq C2 exon
GGTCCTACTGGTCCTATTGGTCCTCCTGGCCCAGCTGGCCAGCCTGGAGATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000168542-'34-39,'34-38,35-39=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(43.2=100),PF0139113=Collagen=PU(26.9=50.0)
A:
PF0139113=Collagen=PD(17.3=77.8),PF0139113=Collagen=FE(25.4=100),PF0139113=Collagen=PU(17.2=61.1)
C2:
PF0139113=Collagen=FE(25.4=100),PF0139113=Collagen=FE(26.6=100),PF0139113=Collagen=PU(3.1=11.1)
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:
GCTGCTGGTACTCCTGGTCT
R:
CTTATCTCCAGGCTGGCCAG
Band lengths:
132-186
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)