MmuINT0114420 @ mm10
Intron Retention
Gene
ENSMUSG00000006675 | P4htm
Description
prolyl 4-hydroxylase, transmembrane (endoplasmic reticulum) [Source:MGI Symbol;Acc:MGI:1921693]
Coordinates
chr9:108579716-108580106:-
Coord C1 exon
chr9:108580016-108580106
Coord A exon
chr9:108579840-108580015
Coord C2 exon
chr9:108579716-108579839
Length
176 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGG
5' ss Score
9.33
3' ss Seq
CCTCACCTTGTTGCCTACAGAGT
3' ss Score
7.64
Exon sequences
Seq C1 exon
CTACATGACAGTGCTGTTTTATTTGAACAATGTCACCGGTGGGGGTGAGACCGTCTTCCCTGTGGCAGACAACAGGACCTATGATGAAATG
Seq A exon
GTAAGGGCCAGTGAGCTGTTATTACTCTTGGGCTGGTAGGGCCTTGGGCAAGTGTGTACACACCCTTCCAGAGCTGGGACGAGGGCACATCTGCCTGTTTTCCCTCCAGCCAACCTTGGCTGCCTGGTCCTGCAATGGCAGGCAGTCCACAAACAGCCTCACCTTGTTGCCTACAG
Seq C2 exon
AGTCTGATTCAGGATGATGTCGATCTCCGGGACACTCGAAGGCACTGTGACAAGGGCAACCTTCGTGTCAAGCCCCAGCAAGGAACTGCAGTCTTTTGGTACAACTACCTTCCTGATGGGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006675:ENSMUST00000006853:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.032 A=NA C2=0.095
Domain overlap (PFAM):
C1:
PF136401=2OG-FeII_Oxy_3=FE(20.5=100)
A:
NA
C2:
PF136401=2OG-FeII_Oxy_3=FE(28.1=100)
Main Inclusion 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:
ACATGACAGTGCTGTTTTATTTGA
R:
TGCCCATCAGGAAGGTAGTTG
Band lengths:
211-387
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