HsaINT0025316 @ hg19
Intron Retention
Gene
ENSG00000198917 | C9orf114
Description
chromosome 9 open reading frame 114 [Source:HGNC Symbol;Acc:26933]
Coordinates
chr9:131586351-131587148:-
Coord C1 exon
chr9:131587050-131587148
Coord A exon
chr9:131586454-131587049
Coord C2 exon
chr9:131586351-131586453
Length
596 bp
Sequences
Splice sites
5' ss Seq
TCAGTAAGG
5' ss Score
5.2
3' ss Seq
TGAGCTGGCCCCACCCCCAGGTG
3' ss Score
7.85
Exon sequences
Seq C1 exon
ACTGCAAGACCTACCATGGCAAAGTGGTATCATCGCAGGACCCTCGCACCAAAGCTGGTCTCTACTGGGGCTACACCGTCCGACTGGCTTCCTGCCTCA
Seq A exon
GTAAGGACAGACCTTACTTCTCTGAATATCCATCCATCCCTCTGGGAGGTGGCCGGGAGCCTTGCCTGACCCAAATATCAGACCAGGGTTTTTGTCCTGTCAACTTGCTGTGTGTCCTTGGGCAAGTCCTTCCCCTTCTCTGGGCCTTGTTCTCCCTGGATGCACTGCCTGGAATGCTGTTAAGGACTACTGAGCAAAAGTATCATTATTGATCAATAATGTTTCTGTAGGGTTGGGAATGGAGGCAAAAGGGCCAGAGAAGTCAGAGGCCCACTTCATGTTCTTGGTGCCTCTTCCTATCCAGTCTCTGCCCTGTTCCCCAGCCAAGCACAGGCTTGGTGTCTGCCCTGCTCAGTCCTTGACTTTCCAGGAACAGCTCTACCCACCCCTGCTCGGTACACACACACCCCTGCCTCAATGCACACACAGGCAGAGCTCTACCCACCCACCCCTACCTTAGTACACACACGCACACACACACACACACACACCACACAGCTCTTCCCACCCACCCCCGCCTCAGTACACACACACATAATACCCGGAGCTATGGCTTGTGGGGAGCAGGACCTGCACTGAGCTGGCCCCACCCCCAG
Seq C2 exon
GTGCTGTGTTTGCTGAGGCCCCCTTCCAAGATGGGTATGACCTGACCATCGGGACGTCAGAGCGCGGCTCAGATGTGGCCTCTGCCCAGCTTCCCAACTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000198917-C9orf114:NM_016390:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.191 A=NA C2=0.036
Domain overlap (PFAM):
C1:
PF0259812=Methyltrn_RNA_3=PU(24.6=94.4)
A:
NA
C2:
PF0259812=Methyltrn_RNA_3=FE(11.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCAAGACCTACCATGGCAA
R:
GAAGTTGGGAAGCTGGGCAG
Band lengths:
199-795
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)