HsaEX6017367 @ hg38
Exon Skipping
Gene
ENSG00000168542 | COL3A1
Description
collagen type III alpha 1 chain [Source:HGNC Symbol;Acc:HGNC:2201]
Coordinates
chr2:188997165-188997753:+
Coord C1 exon
chr2:188997165-188997218
Coord A exon
chr2:188997336-188997389
Coord C2 exon
chr2:188997700-188997753
Length
54 bp
Sequences
Splice sites
3' ss Seq
CTAACTGTTCTTGTTTTTAGGGT
3' ss Score
10.99
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
Exon sequences
Seq C1 exon
GGTGCTCCTGGTAAGAATGGAGAACGAGGTGGCCCTGGAGGACCTGGCCCTCAG
Seq A exon
GGTCCTCCTGGAAAGAATGGTGAAACTGGACCTCAGGGACCCCCAGGGCCTACT
Seq C2 exon
GGGCCTGGTGGTGACAAAGGAGACACAGGACCCCCTGGTCCACAAGGATTACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000168542-'36-35,'36-34,37-35
Average complexity
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=PD(8.2=27.8),PF0139113=Collagen=PU(23.4=83.3)
A:
PF0139113=Collagen=FE(26.6=100)
C2:
PF0139113=Collagen=FE(21.5=100),PF0139113=Collagen=PU(14.3=61.1)
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:
GGTGCTCCTGGTAAGAATGGA
R:
TTGTAATCCTTGTGGACCAGGG
Band lengths:
108-162
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains