HsaINT0025597 @ hg19
Intron Retention
Gene
ENSG00000196642 | C9orf86
Description
chromosome 9 open reading frame 86 [Source:HGNC Symbol;Acc:24703]
Coordinates
chr9:139731798-139732467:+
Coord C1 exon
chr9:139731798-139732114
Coord A exon
chr9:139732115-139732313
Coord C2 exon
chr9:139732314-139732467
Length
199 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGC
5' ss Score
9.88
3' ss Seq
CCCGGCATCACTGTTCACAGAGC
3' ss Score
4.96
Exon sequences
Seq C1 exon
CTTCCTGGAGATGATGGAGGCTCGCAGCCGTGGCCATGCGTCCCCACTGGCGGCCAACGGGCAGAGCCCATCCCCGGGCTCCCAGTCACCAGTGGTGCCTGCAGGCGCTGTGTCCACGGGGAGCTCCAGCCCCGGCACACCCCAGCCCGCCCCACAGCTGCCCCTCAATGCCGCCCCACCATCCTCTGTGCCCCCTGTACCACCCTCAGAGGCCCTGCCCCCACCTGCGTGCCCCTCAGCCCCCGCCCCACGGCGCAGCATCATCTCTAGGCTGTTTGGGACGTCACCTGCCACCGAGGCAGCCCCTCCACCTCCAG
Seq A exon
GTAGGCCCTGGAGCTGCCCCTCCCAAACTGGTCCCAGACCCCCAGGCCCTCACAGGTGGGGTCCTGGATTTCGGAGCGCTCCACGCTTCTTCCTGCTTGTCCCAGTCCCGTGGGCACATCCCGGGTGGGCCTGGCTTGGGGTTGGGTGCAGTGAGGGTTCTGGTGCCGAGTGAAGAGGACCCGGCATCACTGTTCACAG
Seq C2 exon
AGCCAGTCCCGGCCGCAGAGGGCCCAGCAACGGTCCAGAGTGTGGAGGACTTTGTTCCTGACGACCGCCTGGACCGCAGCTTCCTGGAAGACACAACCCCCGCCAGGGACGAGAAGAAGGTGGGGGCCAAGGCTGCCCAGCAGGACAGCGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000196642-C9orf86:NM_024718:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.932 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0465211=DUF605=FE(32.3=100)
A:
NA
C2:
PF0465211=DUF605=FE(11.9=100)
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:
CCCTGTACCACCCTCAGAGG
R:
CCCACCTTCTTCTCGTCCCT
Band lengths:
249-448
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)