MmuINT0114419 @ mm9
Intron Retention
Gene
ENSMUSG00000006675 | P4htm
Description
prolyl 4-hydroxylase, transmembrane (endoplasmic reticulum) [Source:MGI Symbol;Acc:MGI:1921693]
Coordinates
chr9:108482347-108483235:-
Coord C1 exon
chr9:108483050-108483235
Coord A exon
chr9:108482438-108483049
Coord C2 exon
chr9:108482347-108482437
Length
612 bp
Sequences
Splice sites
5' ss Seq
TCGGCAAGT
5' ss Score
4.02
3' ss Seq
AGCCTCCCCCTGCCTTACAGCTA
3' ss Score
7.89
Exon sequences
Seq C1 exon
GGTCCTGCGCCTCACTCGCCTCTCCCCGGAGATTGTGGAGTTCAGTGAGCCACTACAGGTTGTACGATATGGTGAGGGAGGTCACTACCATGCCCATGTGGACAGCGGACCCGTGTACCCAGAGACCATCTGCTCCCATACCAAGCTGGTAGCCAATGAATCTGTACCGTTTGAGACCTCCTGTCG
Seq A exon
GCAAGTACCTCCCATGGGGGGGGGGGGGTAGGGAGGTGGGGCTTCAGTTCCCAGACTGGGTACCTTGAGGACATGTATTACCTGCTATTGGACCAAGGATACACTGGGCCATTTGGTCAGCCATACCCCTACCTTTCCCCCAAGTCTCTTCTTCACTCTTTATGGAGTAACTGGAAAGTGGTAGCTCCTGGCCACTGTATCTATTCAAATGAAAACAGATCTAGATATCTACAGATACTGGAAATTGGCCCTGTAAGCACTGGTCTTGACTCCATTGTTGGAGGTCCCTGCCTCAGTTTCTACAGTTGTACCCTCCTGCCTGCACAAAGTTAGGTTTTCTTGTGGCTTTCTGGCTCAGTCCTCCCAGTTGCAAGGAGACTTTACATGATATTCCTGCTTCTATCAGCTTACTTTCCCCAGCCAGATCTTTGGTTTAAGGTCACAAACTTACCTAAGTGCACCTGCGATCTTGGCCACACAAGGAGAGTGACTCTGTGGGGAAGAGGGCTGGAGATGTCTTAGCTATCCTAGCCTGACCCTGTGGGCCCTGGGTATCCTGCCCACAAGTGGGAATGTTGGGGATCTACTCAGCAGCCTCCCCCTGCCTTACAG
Seq C2 exon
CTACATGACAGTGCTGTTTTATTTGAACAATGTCACCGGTGGGGGTGAGACCGTCTTCCCTGTGGCAGACAACAGGACCTATGATGAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006675-P4htm:NM_028944:6
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=0.032
Domain overlap (PFAM):
C1:
PF136401=2OG-FeII_Oxy_3=PU(30.1=69.8)
A:
NA
C2:
PF136401=2OG-FeII_Oxy_3=FE(20.5=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:
GGTCCTGCGCCTCACTCG
R:
TCATAGGTCCTGTTGTCTGCCA
Band lengths:
270-882
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: