HsaINT0025592 @ hg19
Intron Retention
Gene
ENSG00000196642 | C9orf86
Description
chromosome 9 open reading frame 86 [Source:HGNC Symbol;Acc:24703]
Coordinates
chr9:139733674-139734317:+
Coord C1 exon
chr9:139733674-139733938
Coord A exon
chr9:139733939-139734145
Coord C2 exon
chr9:139734146-139734317
Length
207 bp
Sequences
Splice sites
5' ss Seq
GCGGTAAGA
5' ss Score
9.63
3' ss Seq
AGTTGCTCTCCCTGCTCCAGGAT
3' ss Score
8.74
Exon sequences
Seq C1 exon
GTCCTCCATACCAGCTTCGAAGCCACGGAGGGGGACAGCTCCCACGAGGACCGCAGCACCCCCCTGGCCAGGCGGTGTCTCTGTTCGCACAGGTCCGGAGAAGCGCAGCAGCACCAGGCCCCCTGCTGAGATGGAGCCGGGGAAGGGTGAGCAGGCCTCCTCGTCGGAGAGTGACCCCGAGGGACCCATTGCTGCACAAATGCTGTCCTTCGTCATGGATGACCCCGACTTTGAGAGCGAGGGATCAGACACACAGCGCAGGGCG
Seq A exon
GTAAGACGAGTCCTCCCGGGGCAGAGGTCAGCCAGGTGGCCAGGGTCCCTCCCACAGGCCTGATCTGGGTGGGTGCAGTGGGAGGAGGCTTCTGGAAGAGGCATCTCATGTCCCCACACTTGGGCCTTGCCGGCCTGGTTTGAGATCCCACAACCCCTGGGGGTGTGGGAGGGATGATGGCCTGACCAGTTGCTCTCCCTGCTCCAG
Seq C2 exon
GATGACTTTCCCGTGCGAGATGACCCCTCCGATGTGACTGACGAGGATGAGGGCCCTGCCGAGCCGCCCCCACCCCCCAAGCTCCCTCTCCCCGCCTTCAGACTGAAGAATGACTCGGACCTCTTCGGGCTGGGGCTGGAGGAGGCCGGACCCAAGGAGAGCAGTGAGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000196642-C9orf86:NM_024718:12
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
Other Skipping Isoforms:
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCTCCATACCAGCTTCGAA
R:
TCACATCGGAGGGGTCATCTC
Band lengths:
302-509
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)