HsaEX0011641 @ hg19
Exon Skipping
Gene
ENSG00000197768 | C9orf173
Description
chromosome 9 open reading frame 173 [Source:HGNC Symbol;Acc:37285]
Coordinates
chr9:140146190-140146977:+
Coord C1 exon
chr9:140146190-140146347
Coord A exon
chr9:140146453-140146587
Coord C2 exon
chr9:140146889-140146977
Length
135 bp
Sequences
Splice sites
3' ss Seq
AGCTTGCTTCCTGTGGCCAGTGC
3' ss Score
4.28
5' ss Seq
GAGGTGTGT
5' ss Score
6.14
Exon sequences
Seq C1 exon
GCCCAAGGCATCTGTGCTGTTGTTGGGCCCGGAGCCGGGGATGGCCTGGGATGAGACACAGCCCCCAAAGATGAAGGAGATCCCAGTTGGCCTCAGGTTACAGACGGGCACCCCCCAGGAGTCCCTGCCCACCTACACCCAGACCCTGAGGGAACTAT
Seq A exon
TGCTGGAGCAACGCCCCCTGATCACAGCTGACCTGGAAGTCCCCAGCCCCACCAGGTACCAGGTGCCGAGCCCGTCCGTACGAGAGTCCTCCCCACACCCCCACTACAGCATCGGCTGCAAGCACCAGGGCCGAG
Seq C2 exon
AGGGCGGTGGCCGCAGGGCATGGCAGACTTTGTGGTTCCAGAGCGAAAGCCCCTTCACGCAGAAAGCTGACTTCGACCAAGAGCAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197768_CASSETTE1
Average complexity
S*
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.914 A=0.775 C2=0.422
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
NO
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCTGTGCTGTTGTTGGGCC
R:
TTGCTCTTGGTCGAAGTCAGC
Band lengths:
235-370
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
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)