MmuINT0129662 @ mm10
Intron Retention
Gene
ENSMUSG00000053746 | Ptrh1
Description
peptidyl-tRNA hydrolase 1 homolog [Source:MGI Symbol;Acc:MGI:1913779]
Coordinates
chr2:32776983-32777597:+
Coord C1 exon
chr2:32776983-32777028
Coord A exon
chr2:32777029-32777121
Coord C2 exon
chr2:32777122-32777597
Length
93 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGT
5' ss Score
7.8
3' ss Seq
ATTCCCCTGGGACCCTACAGGCA
3' ss Score
5.52
Exon sequences
Seq C1 exon
GGGCCATAATGGAGTCCGTTCCTGCATTAGCTGTCTGAACTCCAAT
Seq A exon
GTGAGTCTACCCTTCTGCCCTGCCCTGGGTGGGGGTGGCTAGCATTGACATTGTATCTCACCAATGCATCCTCATTCCCCTGGGACCCTACAG
Seq C2 exon
GCAATGCCAAGGCTGCTGGTGGGCATCGGGCGCCCCACACACCCTAATATGGTGGAGAACCATGTCCTGGGCTGTTTCTCCCCGGAGGAGCAGGAGCTACTGTCCCCATTGATGGATCAGGCCACTGACCTGCTCCTGGACCACATCCGTGCTCGAAGCCAGGGACCATTGTCAGGCCTCTAATACCAGTGGATATATCTACCTGTTTGACTGCCTGCCGGTGCCATGAAGCCAAGACAGGGCCACAGAACTGCAATGACACAGTGGTACCCAATGTTTATATAACTTCCCTGGGTTTCCCCAGGCTACTTGCAGATTCAAGGAGGGACTGTGGCCACATCAGTCTGTTTCTGCAGCAGCTTGGTCTCCCCGTTCGCTATTTGCGGTGTAGGAAAGGTCTAGGAAGGGTAAACTTTCTGAACCTTTTGAGAGCTCCAGATGGGTAGATCTGCAAGATTAAAGATACGAACTTGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000053746:ENSMUST00000066352:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.067
Domain overlap (PFAM):
C1:
PF0119514=Pept_tRNA_hydro=FE(8.4=100)
A:
NA
C2:
PF0119514=Pept_tRNA_hydro=PD(30.7=90.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
GGCCATAATGGAGTCCGTTCC
R:
CAGTGGCCTGATCCATCAATGG
Band lengths:
172-265
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types