MmuINT0114417 @ mm10
Intron Retention
Gene
ENSMUSG00000006675 | P4htm
Description
prolyl 4-hydroxylase, transmembrane (endoplasmic reticulum) [Source:MGI Symbol;Acc:MGI:1921693]
Coordinates
chr9:108581842-108582943:-
Coord C1 exon
chr9:108582847-108582943
Coord A exon
chr9:108582005-108582846
Coord C2 exon
chr9:108581842-108582004
Length
842 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGC
5' ss Score
8.27
3' ss Seq
GATGAGGGTGCTCTGCGCAGGCG
3' ss Score
3.6
Exon sequences
Seq C1 exon
GTCCTGGCCCAGACTCGCCTGGGAAATGGACGGTGGATGACTCCAGAGAACATTCAGGAGATGTACTCTGCAATCAAAGCAGACCCTGACGGTGATG
Seq A exon
GTGAGCGCAAACCTTCCACTGTTCCATGCTTGTGAGCTGTCTCCTCCCAGGAGCATGCCCTGAAAAGTTCAGGGGCCCTTCCCTTGCAGCAGGCAGCTTTCATGCCCAGCTTTGAAAATGCACAGAGTTAGGGAGGTGAGGATCTAGGTTTCTATCGAACCTAGAGTGAAAATTCAGCTGGAGCCTGTGGCTGGCTCTCAATCTAGGCCAAAGGATAGAACAATTACAGCAAAGCCACCCACTCTTCCAGAGCCCCAGAGGGATACCTCTGCTTAGTGGTCTGAGCAGGAAGAGAGGAGCCTTCTCATCTGTGGGGTGGTCAGGAGTTTGGGGTTTTTTTTTTTTGCTAGGGTAACTGGTATTGTAGCAGGAAGGGCTGGCCAACATGGTTCCTCCCAGGATGACGTGAGGGGACTTCTGGGGACTATCCCTGCTTTCACACTACAGTGTGAAAGGCCCTGGGGGAGACTCAGCACAGGATGATCTCTCTCCTCACACTCTATAGGTTGGAGCATGGCTCACACTGCTACAGGGCAGGTGGCAGAGCCCAGGGCCATCTTGGTCATGTGGCCCAAATGTCCTATGGAGACCCTGCTCTGGCTGTCTGGGTTTTCGGGACCAAATCAAGGTTTAAACAGAAAACAAACTTCTCTGGGTCTTCCCTCAGGGCCCGATGTGACAGAAACCAGGTTCATCTGACCCGAGTCCAGGTGGGGACACATGGCCCCCCAGTGCCTGAGGCCAGGGGCTGCCGCTACCTTTGGGGTAGGTAGGGAGGTGCCGCCTGCCACTGTGCTTCTCCACATTGGCCTGGCAGGCACTGATGAGGGTGCTCTGCGCAG
Seq C2 exon
GCGTGCTGAGTCTGCAGGAATTTTCCAACATGGACCTCCGAGACTTCCACAAGTACATGAGGAGCCATAAGGCAGAATCCAATGAGCTGGTGAGGAACAGCCACCACACATGGCTCCACCAGGGAGAGGGAGCACATCACGTCATGCGTGCCATCCGCCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006675:ENSMUST00000006853:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.182 A=NA C2=0.164
Domain overlap (PFAM):
C1:
PF134991=EF-hand_7=FE(30.5=100)
A:
NA
C2:
PF134991=EF-hand_7=PD(10.5=20.0)
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:
GTCCTGGCCCAGACTCGC
R:
GCGGATGGCACGCATGAC
Band lengths:
255-1097
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