HsaINT0025657 @ hg19
Intron Retention
Gene
ENSG00000198870 | C9orf96
Description
chromosome 9 open reading frame 96 [Source:HGNC Symbol;Acc:28669]
Coordinates
chr9:136268824-136269172:+
Coord C1 exon
chr9:136268824-136268952
Coord A exon
chr9:136268953-136269043
Coord C2 exon
chr9:136269044-136269172
Length
91 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGC
5' ss Score
7.23
3' ss Seq
AGCCCGGCCCCTTTCTGCAGGCT
3' ss Score
8.08
Exon sequences
Seq C1 exon
GTATCATTGTGAACAAGGCCCCCTTGGAGAAGGTCCCGGACCTCATCAGCCAGGTGTTGGCCACCTACCCTGCGGATGGGGAAATGGCAGAAGCCAGCTGCGGAGTCTTCTGGCTGCTGTCCCTGCTGG
Seq A exon
GTGAGCTGGGTGGGCGCCCTGGGCCCCTGGGGCTGGGAGGGGTGGGCCTCATGGCACAGCAGGCACAAGGCAGCCCGGCCCCTTTCTGCAG
Seq C2 exon
GCTGCATCAAGGAGCAGCAGTTTGAACAAGTGGTGGCGCTGCTCCTGCAAAGCATCCGGCTGTGCCAGGACAGAGCCCTGCTGGTGAACAATGCCTACCGGGGACTGGCCAGCCTGGTGAAGGTGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000198870-C9orf96:NM_153710:15
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.009 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF050048=IFRD=PD(5.0=13.6)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACCTCATCAGCCAGGTGTTG
R:
ATTGTTCACCAGCAGGGCTCT
Band lengths:
183-274
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)