HsaINT0025583 @ hg19
Intron Retention
Gene
ENSG00000196642 | C9orf86
Description
chromosome 9 open reading frame 86 [Source:HGNC Symbol;Acc:24703]
Coordinates
chr9:139726173-139726822:+
Coord C1 exon
chr9:139726173-139726313
Coord A exon
chr9:139726314-139726713
Coord C2 exon
chr9:139726714-139726822
Length
400 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
TCTTTTTTCCTTTCTGAAAGCAG
3' ss Score
5.14
Exon sequences
Seq C1 exon
GACCTTCAATTACATTCTCCGGGAGCTTCCAAAAGTGCCCACCCACGTGCCAGTGTGCGTGCTGGGAAACTACCGGGACATGGGCGAGCACCGAGTCATCCTGCCGGACGACGTGCGTGACTTCATCGACAACCTGGACAG
Seq A exon
GTGGGTGCGGTGGCCCTGCTCCCGAGGGACCCTGCCCGGTGCTCCGGTGTGCGGGGGAGGGTGCTGAGGCAGAGGCCCAGGGAGGGGTTAACGTTAGCATGGGGCCCGGCGGATGTGGGTCTCGCCGCTGAGTGGGGCTCACTGAAGCCTGGGTCTCCCCGATGGCAGGGCCGGGAACTGTGTGCTGGGGAACTGTGTGCCAGGGTGAAGTGCTGGCACTGTGGGGTCACCTGCAGAAGGGCACTCGGCTTAGCTGCTTAGCAGGGCTCAGCAGGGTCCTGTGGCCTCAGGAGCCTGCAGGAGGAGGGAGGGCAGTGCGGACCCACAGCTGTGGGCCCAGGGGTGATCCTTGGCACCAGGGCAAGGGTCTTTCTCTTGCATCTTTTTTCCTTTCTGAAAG
Seq C2 exon
CAGACCTCCAGGTTCCTCCTACTTCCGCTATGCTGAGTCTTCCATGAAGAACAGCTTCGGCCTAAAGTACCTTCATAAGTTCTTCAATATCCCATTTTTGCAGCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000196642-C9orf86:NM_001173988:6
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF084778=Miro=PD(19.3=54.2),PF0465211=DUF605=FE(14.3=100)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCAATTACATTCTCCGGGAGCT
R:
CTGAAGCTGCAAAAATGGGAT
Band lengths:
246-646
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)