HsaINT0025662 @ hg19
Intron Retention
Gene
ENSG00000198870 | C9orf96
Description
chromosome 9 open reading frame 96 [Source:HGNC Symbol;Acc:28669]
Coordinates
chr9:136251401-136253332:+
Coord C1 exon
chr9:136251401-136251475
Coord A exon
chr9:136251476-136253230
Coord C2 exon
chr9:136253231-136253332
Length
1755 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGT
5' ss Score
7.07
3' ss Seq
AGGGCCTCCTGTCCCAGCAGATC
3' ss Score
6.98
Exon sequences
Seq C1 exon
CTGATGCCACTGCTGAAGCTGCGGCACGCCCACATCTCTGTGTACCAGGAGCTGTTCATCACGTGGAATGGGGAG
Seq A exon
GTGGGTCAGAGCTGACACCTACGGGCTCAGCCGCCACGCAGTGGGCTGCAGGACCAAGCAGACTGAGCCCAGAGCACGCCCACCCCCCACTGTCAGAATAGCTCGTGTGGCAATGGCAGTGACTGTAAACGTGGCCACCCCTGACCTAACACTCACTGGGGCCAGGTACCATGCTGGGGGCTTTCGGTGCATAGTCTCATAGGAGCCCCAAAAACCTCATCGTCAGGAGAGTTTTTTTTTTTTTTGGACAAAGTCTCGCTCTTGTCCCCCAGGCTGGAGTGTAATGGTGTGATCTTGGCTCACTGCAACCTCTGCCTCCCGGGTTCAAGAGATTTTCTTGCCTCAGCCTCCCGAGTAGCCAGGATTACAGGCGCGTGCCATGATGCCCGGCTAATTTTTGTATTTTTAGTAGAGACGGGGTTTCACCATGTTGGCTGGGCTGGTGTTGAACTCCTGACCTTAAGTGATCCGCCCGCCTCGGCCTCCCAAAGTGCTGGGATTAGAGGCGTGAGCCACCACGCCTGACCAGGAGGGGTTCTTAACCCATTTGACAGAAGAAGAAACAGAGGCTAACAGAAACAAGTTGCTCCAGGTTACCCAGCTAGTACGTGGCCAAGCCAGAGGGCCAGGCCAGATGGGCCTGACTCCCGGGCTCTGCACGCAGCCAACGAGCTTGTCCTGGTGAGCCTGTGCCTCTGATGACAGAGTTTTTACTTTCATGGAAGGAGCTAGTTGACCTCCGTCTCCACAGCCACCCGACACCGGTGCCGTCCTGGGCCTGTGCGCCCCTTACTCCTGCAGCCCCTGTGCAGCTTACTGACCAGCACCACATCCGTCATCACGTGCCAGGAGGGCTGCAGGGCAGGAAGTACTGTCCCTGTGCTCCTGATGGGGCCTAGGGCTCCGGTTCAGGAGCTCTCCAAGGCCACACAGCTAGTAAACAGCTGACTGGGGACGGAGACTCAGGTCCAGCAGCCGGGTCCTGTAGGCTGGATGACTTCTTGTCTTTACAAGGAGCCAGGAGCTTTCCAGTCACTTCTGATGGGACTGAGGCAGACAGCGGGAGGCTGAGCAGGCACAAGGGGTGCTGGAGGTAAAGAGAGGCTGAGAAGCCTTCTGCCAGGCGCCAGCCTGCATGAGATGTCCACACTGGTGTTCCCACCTGGGGCCAACAATCCCGGGTCCGAGCAGGAAAGGCCCCTCACACGCTCCCTCTGCTCCAGCGGGTCTTGGGGAGGGGACCTCACTGCATGCACTCCCAAAGATTTTCTGAGCACCCCCTAATGCTCTCAAGGAGGGTGCAGAGAAGCCAAGAGGACATTTCCCTATGGGAGGGAGCACAGAATTGGGGGCCCTGACCTGGTCTGCTGGGGCTCTGGCCAGGGCAGGGTCCTCAGAGGAAATGGGTCTGAGCTGAGCCCTAAAGGGTGCATAGTTATCCCTATGAAGGGGGTGGGTAGTGGTCCAAGCAGAGGGGTCCATGTGTGCAGTGGCCAGGGGACAAGTGCAGCTTTTGGGAAAGTCCAAGTAGCTTGGTGTGGATGGAGTGTGGAGTGGAGGTGGAGCCTGGGAATGGGGAGAGGAGAGAGAGGAAGCTGAAGGTGGGGCAGGAGGGGCTTGTAGCCCCCTCCAGTGGGCAGTGCTCCCACGGCCACTGCAAATGGCAGCTGAGCGCAGGGAGGCCCTGGAGCAGGTGAGCCTGCAGAAGCACCGGGGCCTGGGCGTCCTTTGGCTAAGGGCCTCCTGTCCCAGCAG
Seq C2 exon
ATCTCTTCTCTGTACCTCTGCCTGGTGATGGAGTTCAATGAGCTCAGCTTCCAGGAGGTCATTGAGGATAAGAGGAAGGCAAAGAAAATCATTGACTCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000198870-C9orf96:NM_153710:4
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(11.1=100)
A:
NA
C2:
PF0006920=Pkinase=FE(12.2=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)