HsaINT0025586 @ hg19
Intron Retention
Gene
ENSG00000196642 | C9orf86
Description
chromosome 9 open reading frame 86 [Source:HGNC Symbol;Acc:24703]
Coordinates
chr9:139720231-139722998:+
Coord C1 exon
chr9:139720231-139720278
Coord A exon
chr9:139720279-139722945
Coord C2 exon
chr9:139722946-139722998
Length
2667 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TTTGTTTGTTTTTAAATAAGGAA
3' ss Score
4.32
Exon sequences
Seq C1 exon
CCACGGATGACATCGTGAAGGTTGAAGTCTGGGATGTAGTAGACAAAG
Seq A exon
GTGAGGCGTCTCTGTTCTGTGTCTGCTTCTCTCTGGGACTGTGTGCTCTGCGCAGAGAGGCTTCCTTTCTTTCCCCCGGCGCCCATGCATCACCCACCATCCTCGTGGACGGTGCCCAGGGTCTTGCTGCTCTGCTCCCCTCCACATCCAGTGGCGACCCCGCAGCGTGGCGCAGCCCCTCCTGTGGCACTGCATGCTTTGCTGCTTTAGCATACTCCCCGTCTCTGAGTGACCGCGTGCACGGTGGCGGCAGGTGCAGCCGGGGGGTGTGCTTTGAGCCCCAAGGCCCAGGGTGCTATTTTGGGAGCCCTCCTCCTGCACTGCCTGGCGGAGTAGCCCAGCACCAGGCGGCCCCCTGCCCATAGCTGAGGACCCAGCTCCTGCGCTCCTGTCCCTGCCAGGGATCCCCAGCCACACAGACCTGCACTCTGGGGACCGTGGGAGGGCAGCACCAGCCCCCGGGGTGTCCTCGACATCGTTGGTCTCCTCCTCAGCCACAAGGTCATGAGTTCCTCTAAGTCCTCAGGGTGGAGCTCATGGCCCTCCCCGGGGCCCATGGTCCGTGTGCATGTGTGGTGTGTGCAGGGCTGGCCACGTGCACGCCCCGGCCTCACAGGCCTGGCTGTGGCCTCGTTACGAGGCTCTGCTGGAAAGGCGGCCGCCGCCTCTGTGTGATGGTGTCTGTTCGGATGGCGCATGCTCCCCTCCCTCCACCTGTGCTTTGTTGGGGTGGGTTTGGCCATGGGGGGTTAGAGGCAGGTGCTCATGCAGTTCCCGCAGGGGTGCTGGGCCCCTGCGGCTCCCACCACATTGCGCTGGACTCTTGTGGCCCGTGCTGACCTGGTGTTCCAGATGCTGTCTCTGCAGAGCTCTGCGTGGTCTCTGGTGTTAGAGAGGTGGCCACCCACCGCCCTATCATTGTCCTCATCCCCACTGTGAGGAGAAGCTATCAGATCTGCCTGTGGCCCCCAGGTGGCTCAGGAAGGGCCGTCCTGACCCCCATCCTGGCCCCTTTCGGAGCTGCAGAGATTTCCTGTGCCTCCAGCTCTGGCTTCCTGGGTCTGTCCTTGGCGTGGAGCGGGCACAGGCTTCCCGTAGACACGGTTGCCCAGAGTGGGGTTCATAACTGGGCACTGTAAAGGGTGTGGTCTCCACGGCTTAGGATGGGCCCCCCCTTCCTGGTGGCCTGCTGTGCCCGGGGCTGGTGTGGAGGCCTGTGGGTGCAGAGGCCGCCTGGCCCTGGGCTTCCTCTGGGGTTACATGTGTACCCTTGCACCCACCTGTTAGCACCCACCGGGAGAGTCTCACTCAGCCTAAACCAGGGCCCCTCAGGAGGAAAAGGTCCCCAGCTTCATGATGGGGCCCAGTGTGCCTTCCATCCCCGCCCTGACTCAGTGCCCACTGTGCGAGGTGTGAGCACTGTCCACAGCAGCCAGGGCGGCCGGTGGGGAGTGCATTGGAGGGGGTTGAGGTCTCTTGGGCACCTGGTGAGTTCTCAAGGGTGAGAGGAAGCCGAGGCCATCAGGCTTAGCTGACGCTGCATGGGGCAGGCTGCCAAGAGGGAGGCTGAATGGAGCAGCCTCAGGTGAGCCGACAATCCTCACCTCCGCCTGGTCAGCCAGGACCCGGCTCCCCTCCAGTCCCGCCTGCTTTCCCCAAAGCAGATCCAGCCAGTCTCAATGGCTCGCCCGGGGGGTGCTGGTTAGGCTGTGAGCATCCTTCCTGGGTGCAGGCCCCCGACAGCCAGCAGTGCTGTGCTGTGTGTGTGTTGGGGACTCTGCTGAGCCCTTTGTGGCCAGACTGGGGAGGCTCCTCCGGGCTGGCTCTGTCCCCTGTACCTTGTGAGGGAGGGGCTGACCCCCTGACTGGGTTACATCGTGGTGAGCAGTTCAGAAACAAGCTGTGGAATGAAGTGGACGTGGCGTTTTAAACACATGAGCCCCATCTGTTCTTAGGGGTTTTGTTTGTTGTCCCAGTCCGTGACTCCAAGACTGGGACCCCCAGAGTTCCCAGGATGGTCTGGAGCCTTTATCCTCAGGTCAGCATTGTGGAGTTAAAGGGAGGGGACCACGGCCCCTCATTCTCAGGAGAGCCATGGTGACCTTGATGGCGGAGGCTCAGGGGGACCTGGACCGTGGACACCACACAGCTGCCCTCCTCCCTCCCGAGGCCATTTCAGGGCTGGAATCCCTGCCCCCCTCTCCTTTCCTCCCGGGCTGGTTGTTGCCTTGAGAGTCCGTGCGCTCATCTCCCCACTTTTACCCCAGGGGGAGGCCCCTCACCTTCCCACCATATCCCTTGTACTTCCTCCCACCCTGGACTTGGGGGAGCTGGGGGGAGGGGGCCCTTCCTTCAGCAGCAAACCCTCCTGGTGTAGGGCTGTAGGCCATCCCACCGCAGCCTGTCCAGGAGCTGCTGAGCCTGTCAGCCCCAACTAGCACCTCCTGTCCAGGCCCGGCCCAGCCCTGCCTCCAGAGCCTACAGAGGGGCCTCGCCCAGGTCCTGCTGCTCCAGAGCTTGTGGGTGCCCACGCTGCAGGCTGTTTGGGGTGGTGGAGTAGAGCACCCGCTGGAGCTGGGGGCTGAGTGGCCATGGGGGGACCATGCTCCTCCTATGGCCCAAGGCCCAGGGGTTCCACCTCGTAATTTTTGTTTGTTTTTAAATAAG
Seq C2 exon
GAAAATGCAAAAAGCGAGGCGACGGCTTAAAGATGGAGAACGACCCCCAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000196642-C9orf86:NM_001173989:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.675
Domain overlap (PFAM):
C1:
PF084778=Miro=FE(11.9=100),PF0465211=DUF605=PU(3.4=64.7)
A:
NA
C2:
PF084778=Miro=FE(12.6=100),PF0465211=DUF605=FE(5.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)