HsaINT0135220 @ hg19
Intron Retention
Gene
ENSG00000187024 | PTRH1
Description
peptidyl-tRNA hydrolase 1 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:27039]
Coordinates
chr9:130476227-130476703:-
Coord C1 exon
chr9:130476658-130476703
Coord A exon
chr9:130476562-130476657
Coord C2 exon
chr9:130476227-130476561
Length
96 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGT
5' ss Score
7.8
3' ss Seq
CCTCTCTGGCTCTCCCACAGGCA
3' ss Score
10.51
Exon sequences
Seq C1 exon
GGGCCACAATGGAGTCCGTTCCTGCATTAGCTGCCTCAACTCCAAT
Seq A exon
GTGAGTCTACCCTTTTGTTGTGCAACTGGGTCGGGTGGGCCAGGGGTCCCCCAGCACCTCGCCAAAGCTTCCTGGGCCTCTCTGGCTCTCCCACAG
Seq C2 exon
GCAATGCCAAGGCTGCGGGTGGGTATCGGGCGCCCGGCGCACCCTGAGGCGGTTCAGGCCCATGTGCTGGGCTGCTTCTCCCCTGCTGAGCAGGAGCTGCTGCCTCTGTTGCTGGATCGAGCCACCGACCTGATCTTGGACCACATCCGTGAGCGAAGCCAGGGGCCCTCACTGGGGCCGTGACACTAGTGGCCATGGCTGCCTGCCTGACTGTAGTGCCCACCAACCCAGCCACTGCCACAGAGCTGCCACGCCAGCCTTGGTATCTACTTTTTATACAAATCTCCTCTAGACTGTTCCAGGCTGCCTGCGGATTAAAGTGGGGGTGACTGTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000187024-PTRH1:NM_001002913:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.048
Domain overlap (PFAM):
C1:
PF0119514=Pept_tRNA_hydro=FE(8.4=100)
A:
NA
C2:
PF0119514=Pept_tRNA_hydro=PD(13.6=37.8)
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:
GGAGTCCGTTCCTGCATTAGC
R:
TGGTCCAAGATCAGGTCGGTG
Band lengths:
179-275
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)