HsaINT0025661 @ hg19
Intron Retention
Gene
ENSG00000198870 | C9orf96
Description
chromosome 9 open reading frame 96 [Source:HGNC Symbol;Acc:28669]
Coordinates
chr9:136249640-136251475:+
Coord C1 exon
chr9:136249640-136249684
Coord A exon
chr9:136249685-136251400
Coord C2 exon
chr9:136251401-136251475
Length
1716 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACT
5' ss Score
8.77
3' ss Seq
CCTCTGCTCTATCCTGGCAGCTG
3' ss Score
10.03
Exon sequences
Seq C1 exon
GTGGAATGCATGGATGACCATTACGCCAGTCAGGCCCTGGAGGAG
Seq A exon
GTAACTCTCAGGGTAGTTTTCCCTCTGGAAGAGCTCAATGGAGCATACACAGACTGTGTTCTGTACCTTCTTGTTGAGTGCCTGGATGAAGAGAAGGCTGGAGGGAGGGATAGAGCATCAGCACCAGTTTTGCCTCAGCTGTGAAGCCAGCAGCCCCAGGTCATGAAGGGAGTCCATGCCCCAAACACTCACTGCTAAATGCAGGTGCCGACAACTTAGAACATATGTTCCCAGAGAACATAAAGTTTAAATATTGGGCTGGGCACGGTGGCTCACATTTGTAATCCCACCACTTTGGGAGGCCGAGGCGGGTGGATCACTTGAGGTCAGGAGTTCAAGACCAGCCTAGCCAACATGGGGAAACCCTGTCTCAACCAAAAATACAAAAAAATTAGCTGGGCATGGTGGTGGGCACCTGTAATCCCAGCTACTTCGAGAGGTTGAGGCGGGAGAATCACTTGAACCTGGGAGGCGGAGATTGCAATGAGCCGAGATTGCACCATTGCATTCCACCCTGGGTGACAGAGCAAAACTTTGTCTCAAAAATAAATAAATATTGGCCGGGTCCCTAGGTTAATCTACCAATAACTTCTTTAAATATTTTTTCTTCAATATAAAATTATTAATTACAGCAGAAAATTTTAAAAATACAGAATTGGGTTTTCTTTTGTTTTTACCTTTTTTTTTTTTTCTTTAATAGCAATGGGGTCTCACCATTTTGCCCAGGCTAGTCTGAATTTCTGGGCTCAAGCAATCGTCCCACCTCGGCCTCCAAAGTGCTGGGGTACAGGCATGTACCACCACACCCATACCAGAACTGTTTAACAAAACAAATATAAATTACCCTTAATTCTACCATTGAGAGCTGCCCAGCAGTAACATACTCGTTTACAATAATAGCGATAACAGCTGCACTTCGGTTTGATTGGCAAAGCCTCCGAGTAGCCTTTCTTTGTGTTTCTTGAATTTCCCACGAGCTTGAAGGTGTCCCCTCTTATCTCATGGTCACTTGTTTGTCTTCTGGAATTGCTGGCTCTGGAGCTTGGCCAGCAAACATTATTGGGTGTATAGTGTGACCGAAGCACAGTGGTGGGCCCAGGCTACTCGGTAACAAATGGGAAGAAAGAGCATGGGGCCTGCCCAGAGCCGCACGCCGCCGTGGCTTTTCACGTTGCCGATTCCCATCCACAGCCCACTAGGTAGGCCACCTGCTTTCATGCCCAACCTTCCACCCCAAGCAGTTGTCTGTCTGGCTCCATGTCTCTAAGGCAGCCCTATCTGCTCCTGTTTGGGCATGTTTCAAAGCACTTTCCGCCAGGGCAGGGGCACCGGGACCTCTCCATGTGCCCACCTCCCGGTGTCTGCACCACCTCCTCCAGCCAGCCCTGGCTGTGGCTGATCCCCACCTTCCTGGCACTGCCTGCCACAGCTCACTCACCCCCCATGGTATCCCTGTGAGGCAGATTCCACTAGGACCCCCATTTTCAGATGACTATATGAGGCCCAGTCACCCAGCACAGCCAGCTCATGCTGGAGACAGGACCCACATCGGACTGCCTGGCTCCCAACCACCGTGCAGCTTCCCTGAGCCCACTCCCTGGCCCAGCTCAGAGCCCGAGGCTTGCATGTTTGTTGGGATGTGTGACAGAGAAGCCCGAGCTGAGAAAGGCGTGGAGAGGCACTGACTTCTCCGTTTCCTCTGCTCTATCCTGGCAG
Seq C2 exon
CTGATGCCACTGCTGAAGCTGCGGCACGCCCACATCTCTGTGTACCAGGAGCTGTTCATCACGTGGAATGGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000198870-C9orf96:NM_153710:3
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=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(5.2=100)
A:
NA
C2:
PF0006920=Pkinase=FE(11.1=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:
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
- Genotype-Tissue Expression Project (GTEx)
- 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)