MmuINT0129660 @ mm9
Intron Retention
Gene
ENSMUSG00000053746 | Ptrh1
Description
peptidyl-tRNA hydrolase 1 homolog (S. cerevisiae) [Source:MGI Symbol;Acc:MGI:1913779]
Coordinates
chr2:32631824-32632326:+
Coord C1 exon
chr2:32631824-32632043
Coord A exon
chr2:32632044-32632226
Coord C2 exon
chr2:32632227-32632326
Length
183 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TGTTGTTTCCCTGTGCCAAGCGG
3' ss Score
4.38
Exon sequences
Seq C1 exon
GTGGCTGGCCTGGGGAACCACGGAATGCCCGGCACCCGGCACAGTGTGGGCATGGCGGTGCTGGGGCAAATAGCAAGGCGACTGGGAGTGGCGGAGAATTGGACTCGTGACTCGCGCTGTGCTGCTGACCTCGCCCTGGCCCCGCTCGGGGATGCTCAGCTGGTACTGCTCCGGCCGCGGCGCCTCATGAACGTCAACGGGCGCAGCGTAGCCCGAGCTG
Seq A exon
GTGAGTTGTAGGTTTCATGGATAAGAGGGCACAGGGACCAGAGAGAGGGTTCAATTGTGACAAGTGCCTGGTGAGCCCCAATTACTACAGTGAAGGCTTGGGGAAGCCTGTTTACATATGGGGGTTGTTGTGACCCCTCTGAGCAGATATGCAGTAACTAGAGTGTTGTTTCCCTGTGCCAAG
Seq C2 exon
CGGAGCTGTTTGGGCTGACTGCGGAGGAGATCTATCTGGTCCATGATGAACTGGACAAGCCGTTGGGAAAGCTGGCTCTGAAGCTGGGGGGCAGCGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000053746-Ptrh1:NM_178595:2
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(40.8=100)
A:
NA
C2:
PF0119514=Pept_tRNA_hydro=FE(18.4=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:
TGCTGGGGCAAATAGCAAGG
R:
TTCAGAGCCAGCTTTCCCAAC
Band lengths:
244-427
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: