HsaINT0135219 @ hg19
Intron Retention
Gene
ENSG00000187024 | PTRH1
Description
peptidyl-tRNA hydrolase 1 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:27039]
Coordinates
chr9:130476658-130476981:-
Coord C1 exon
chr9:130476882-130476981
Coord A exon
chr9:130476704-130476881
Coord C2 exon
chr9:130476658-130476703
Length
178 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CCCTCCCATATCCCTTGAAGGGG
3' ss Score
6.16
Exon sequences
Seq C1 exon
CGGAGCTGTTTGGGCTGACTGCCGAGGAAGTCTACCTGGTGCATGATGAGCTGGACAAGCCCCTGGGGAGACTGGCTCTGAAGCTGGGGGGCAGTGCCAG
Seq A exon
GTGAGGTCCTGAGATGGTCAGGGTTGGGATAGGGCTTCAGGCCTCCCAGTTGGGGTGGAGTAGGGCTGCTGACCCAGTCTCCACAGGAAATGGGCTGCTCTGACCCAGCCGGGGCAGGGAGGGGTGGAAGGACACTGCCCCAGGGAGGCACTAACTGCCCCTCCCATATCCCTTGAAG
Seq C2 exon
GGGCCACAATGGAGTCCGTTCCTGCATTAGCTGCCTCAACTCCAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000187024-PTRH1:NM_001002913:3
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:
PF0119514=Pept_tRNA_hydro=FE(26.4=100)
A:
NA
C2:
PF0119514=Pept_tRNA_hydro=FE(8.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGAGCTGTTTGGGCTGAC
R:
ATTGGAGTTGAGGCAGCTAATG
Band lengths:
146-324
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)