HsaINT0130755 @ hg19
Intron Retention
Gene
ENSG00000108819 | PPP1R9B
Description
protein phosphatase 1, regulatory subunit 9B [Source:HGNC Symbol;Acc:9298]
Coordinates
chr17:48211101-48213014:-
Coord C1 exon
chr17:48212918-48213014
Coord A exon
chr17:48212750-48212917
Coord C2 exon
chr17:48211101-48212749
Length
168 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGC
5' ss Score
7.93
3' ss Seq
TACCCTCCTTTGTTTTCCAGATC
3' ss Score
11.46
Exon sequences
Seq C1 exon
GGAGATCGAGTTCCTGAAAAAGGAGACTGCACAGCGTCGGGTTCTGGAGGAGTCGGAGCTGGCCAGAAAGGAGGAGATGGACAAGCTCCTGGACAAG
Seq A exon
GTGGGCCTGGGGCGCCCTGTGGGCAGGGCCCAGTGGAGGGAGCAGCATTGAAGCCCCTACCCTGTGGGTCCTGGAGGGAGGGGATGCCATGTCCTCACCGGGGGGCGGAAGGGGCTGGGATCATGCCTGGTGTCCAGACCTGACCCCCTACCCTCCTTTGTTTTCCAG
Seq C2 exon
ATCTCAGAACTGGAAGGAAACTTGCAAACACTGAGGAATTCCAATTCTACTTAACAGGAATCATTCCATGACTGGACAATAATTAACCCCCCTCCCATTGTTCCTCCCTCCCCTGTCCTCAACACCCCACCCCTCCCCCTTCCAGCCTGGGGACAGGTGCCCCGACTCCCCCCACCCCTCCACCCCACCTCCCCCAGCTTCAGGGACCAGAGGGCTCATATCACAGGCCCCCTTAAGATGGCCTGGGCAGACAGAGGTGGCTAGAAGGGCAGCCTCTTTCTTGCCCCATGGGGCTGAGGCACAGAGGCCGAGGGCTGCCGAGGGCTGGCCTGGTGGTCGACGGACACAAGCACCTGCAGATCAAACTGCCAGACTTTACACACTCCAGCTTTTGTCTCTGGACTGGAACGGGGCTGGGGCTCTCCCAGCATCTGCCAACTGGGGGCTGCTCCCTGCCCATGGGGCACCTGGGTGGCCCCTGGGCCTCTTGACTTGAGATTCTACCTTCTCGGCCCTTCCCTCTCCCCCCATCATTGTGCCGTCTCTGTTGCATTCTGACCCTCCCGCCTGGGGGGTGGGGGCGTTGCCTCAACACCTCCCCCATCCCTGTTCCCTGTCCTGGGAGGGATAGAGTCCACCCCAGAGCCCGGAGGCTGGGCCTGGCCCTGGCCCTGCACTGATTTCTCATGTGTCCTTCGGGAAAAGGGGGAGTGAGAGTGGGAAAAAGGGAGAGTTCAGGACACCTGGTCCCCAGCTCCCCATTGCCTGGGGCAGCAGCCCTCAATTTCTCCTTGTGCCTCCCCTCTTCCAGGTGCCAAATAGCCATAACCTCGTCTTGGAACTGTTATGTGGCCTCTCTGGGGTCCAGGTTTCCTGGTCAAGCCTGGGAATGCCAGGGAGGAAAGGGGGTCTGGCTACAGCGACCCTGGTCTTAGGCAAGGGGAACATTTCTCCCTGGAGAGTCAGGTCCTATCCTGTGCTGCCCTGTCTGCCCAGCCCAGGGCGATGCCTGGAAGCCTACTGACATTGCAGGGAGTCAGCCTCGCCCCCACCCCCTACTGGTTTTCCAATGTTTTGACTGGAGGGCAAAATTTTACTACTACTCATCTTTTTGGAGACCAGGGCTGCCCTGCTGGCAGCCTGCCTTCTAAGTGAAATCGACTCTGTTTCCCCACTTTAACCCCAAATTGGGGCTTGGACCAAGGGAGGTGAGACCACCTCCCCCAGGTCCCCTCCCCTTTCAAAATCCATCTCATTTTGCCACTTCATGCCCCTGCCCTAACTGGGTTTTTGTTCATTTTTTAAAAACAGACCACCCATCCCATCCGTTTTGGCTTCTTGTCCCCTGTAAATAGACCATGACTTCGATCAGTATTTCTTGTCCCCACCCCTTCCTATCCCCAGATGTGCCCCCATCCCCTGAAGGAGCTGGCTGTCTCAGTCCTGGGCTCGCGCACTTCACCCCGGCAGATGGAGGGGGCGGAACCGGGTGGGCGGGGCCGCTTCGGGCTGCTTGGGCCAGCGGCCACCCCTGCCCAGCCGTCGGGAGGGCCGCATCTCTGTATATAATATATATATGTATGTATTGTTCCCGGTTTTGTACGGACCATGCCCTCTGTCAGGTCGTCCCCATAAAAGCAGCCCCCAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000108819-PPP1R9B:NM_032595:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
NonCoding
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGGAGATGGACAAGCTCCT
R:
ATATGAGCCCTCTGGTCCCTG
Band lengths:
249-417
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)