HsaINT0025593 @ hg19
Intron Retention
Gene
ENSG00000196642 | C9orf86
Description
chromosome 9 open reading frame 86 [Source:HGNC Symbol;Acc:24703]
Coordinates
chr9:139734146-139734664:+
Coord C1 exon
chr9:139734146-139734317
Coord A exon
chr9:139734318-139734605
Coord C2 exon
chr9:139734606-139734664
Length
288 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
3' ss Seq
TGTCTGTCCTGTCTGTGCAGGTA
3' ss Score
11.63
Exon sequences
Seq C1 exon
GATGACTTTCCCGTGCGAGATGACCCCTCCGATGTGACTGACGAGGATGAGGGCCCTGCCGAGCCGCCCCCACCCCCCAAGCTCCCTCTCCCCGCCTTCAGACTGAAGAATGACTCGGACCTCTTCGGGCTGGGGCTGGAGGAGGCCGGACCCAAGGAGAGCAGTGAGGAAG
Seq A exon
GTGGGTGGGGGCACCAGAGTGCGGTCAGCCTGCTGGAGTTTGGGTAGAACGTGGGCCTCCTCCCAGCTGCTGGCCGCTGGCCGGGGTCCTCTCCTGAGTCCAGGATGCTGTGCCATGCTCCTGGCAGCCCCCTGCAGGAGCTGATGTTTGCAGTGTGGTCCTGTCCATCAGCAGGGCCTCCTGGAGGGCTGGGGCTCGCTGCTTTGTGAGTTTCTAGAGAAGTCCTGTCACCCAGCTTGGGGTCCCCGTTGGCCTGAGTTTGAGCCACTGTCTGTCCTGTCTGTGCAG
Seq C2 exon
GTAAGGAGGGCAAAACCCCCTCTAAGGAGAAGAAGAAGAAGAAGAAAAAAGGCAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000196642-C9orf86:NM_024718:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATGACTTTCCCGTGCGAGAT
R:
TTCTTCTTCTTCTCCTTAGAGGGGG
Band lengths:
212-500
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)