HsaINT0025596 @ hg19
Intron Retention
Gene
ENSG00000196642 | C9orf86
Description
chromosome 9 open reading frame 86 [Source:HGNC Symbol;Acc:24703]
Coordinates
chr9:139730194-139732114:+
Coord C1 exon
chr9:139730194-139730297
Coord A exon
chr9:139730298-139731797
Coord C2 exon
chr9:139731798-139732114
Length
1500 bp
Sequences
Splice sites
5' ss Seq
CATGTATGT
5' ss Score
5.71
3' ss Seq
ACCCGCCTTCTGCCTTTCAGCTT
3' ss Score
10.14
Exon sequences
Seq C1 exon
AGGGAGACGCTGTTGCGGCAGCTGGAGACGAACCAGCTGGACATGGACGCCACGCTGGAGGAGCTGTCGGTGCAGCAGGAGACGGAGGACCAGAACTACGGCAT
Seq A exon
GTATGTGGCCGGACCCGCCCGTGCGGGCGGTGTGGGGGCTGCGGGCGTGGCCGTGGTGCAGGGCCATGGGCTGCACCAAGGAGACAGCAGAGGGGAGTGTCCCCTGTTTGGGGTAAATTAGTCACCTTTGGGCACGGGTGGAGGAGGACTCAGGTTTGCACTGCCCCCAGCAGCCCCCCCACAGTCACCCCTGGCGTGGACTCCTCATACAGGTCATGCTGTGCCTGCCACTCTGAGTACCGCTGACCGTGGCCAGGTGCTGGTGCTCATGGAGTGCTGCTGGGGCTGCCTGCCCATCAGGGGCTTGGCCTCCCAGATTGATGCCAGCATGGGGTGTGCTTTCTGGGGAGCTGCTTGACTTTGGGAAGCTCCCTGTGTTGAAGAGGCATACAGGCCAGGACATGGAGGTCTCTGGTCCTCGATAGCAGAGGGCGGCTCAGAGCATCCTCCTGAGTGGGCCTGGGCAGTGCATAGCCCCGGGGTTGCGGCCAGTGGGACAGCTGGCCCGTTCTCTGCCTCAGGCTCCTGTACAGCTAGGGGCTTGGTGCCTCCCCTGGGACCCAGGCAGGGACCACGGAATCAGTGGCCCTCCTGAGGCCCCCCAGGAGGTCTCTGTTTCCAGAAGGAGAGCCCTGTGGGTCACCTTGGATCTGGCTGTTGGCTCAGACACAGCAAGAGACCGAGAGGGAAGGCAGTTTGATGCCTGGAGAGGGACCCGTGGCTTCCAGCTGCCAGGCCAGCCCCAGAATGGAGCCCCCCGCATGGGCGCTTCTCTGTTGAACCAATCCTGGCATTTCCTGGGCCTGAGAGTTGGGTCAGCTGGATGCTGCGATGGCCGCACGTGCTCCACCAAGCCCCAGCCCCCTCCTCTTCCCAGAAACCCCCGCTCACGGGAAGGTCCAGTTGCTGCCATCTGGCCACCTCTGCATGGAGCCCCCAACAGCTGTGCCTCAGAACAGATCCGAAGTGACTTTCAGGGGAGCTGGACACATGTACGCTGGTGCCTGCTGTCCCCACCCTTTGGCACTGCTGCTCTTTCTTTTTCTGAGATGGAGTCTCGCTCTGTCGCCCAGGCTGGAGCGCAGTGGTGTGATCTCGGCTCACCGCAAGCTCCGCCTCCCGGGTTCACGCCATTCTCCTGCCTCAGCCTCCCAAGTAGCTGGGGCTACAGGCACCCGCCACCACACCCGGCTAATTTTTTTTGTATTTTTAGTAGAGACGGGGTTTCACTGCGTTAGCCAGGACGGTCTCCACCTCCTGACCTCGTGATCTGCCTGCCTTGGCCTCCTACAGTGCTGGGATTACAGGCATGAGCCACCGTGCCTGGCTGGCACTGCTGCCCTTGGAAGTGGATGGGGATGATGGCCTCTGTGGGGCGGGTGGCCCAGAACACAGTGGCTCTTCCCAGCCCCAGCAGCAGCAGCAGAGAGCCCCCTGTCACCTGAGGGCCTCAGGGAGAGGCAGGGGAGCCAGGCTTCTCACCCGCCTTCTGCCTTTCAG
Seq C2 exon
CTTCCTGGAGATGATGGAGGCTCGCAGCCGTGGCCATGCGTCCCCACTGGCGGCCAACGGGCAGAGCCCATCCCCGGGCTCCCAGTCACCAGTGGTGCCTGCAGGCGCTGTGTCCACGGGGAGCTCCAGCCCCGGCACACCCCAGCCCGCCCCACAGCTGCCCCTCAATGCCGCCCCACCATCCTCTGTGCCCCCTGTACCACCCTCAGAGGCCCTGCCCCCACCTGCGTGCCCCTCAGCCCCCGCCCCACGGCGCAGCATCATCTCTAGGCTGTTTGGGACGTCACCTGCCACCGAGGCAGCCCCTCCACCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000196642-C9orf86:NM_024718:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.681 A=NA C2=0.932
Domain overlap (PFAM):
C1:
PF0465211=DUF605=FE(10.4=100)
A:
NA
C2:
PF0465211=DUF605=FE(32.3=100)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGACGAACCAGCTGGACATG
R:
CAGCCTAGAGATGATGCTGCG
Band lengths:
354-1854
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)