HsaALTA1034372-2/2 @ hg38
Alternative 3'ss
Gene
ENSG00000148362 | C9orf142
Description
chromosome 9 open reading frame 142 [Source:HGNC Symbol;Acc:HGNC:27849]
Coordinates
chr9:136993343-136993664:+
Coord C1 exon
chr9:136993343-136993411
Coord A exon
chr9:136993580-136993585
Coord C2 exon
chr9:136993586-136993664
Length
6 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
CCTGTCCTGTTTTCCCCCAGACC
3' ss Score
12.89
Exon sequences
Seq C1 exon
CTGCAGAAGAGACAGCTGTCAGCCCGAGGAAGAGCCCCCGGCCTGCAGGGCCTCAGCTCTTCTTACCAG
Seq A exon
ACCCAG
Seq C2 exon
ATCCCCAGAGAGGTGGCCCTGGACCTGGAGTCAGGAGGCGGTGTCCAGGAGAGTCGCTCATCAACCCCGGGTTCAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148362-6-7,6-6-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.917 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF153841=DUF4610=FE(11.6=100)
A:
NA
C2:
PF153841=DUF4610=FE(14.1=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
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:
GGGCCTCAGCTCTTCTTACCA
R:
CTTGAACCCGGGGTTGATGAG
Band lengths:
99-105
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains