MmuINT0114414 @ mm10
Intron Retention
Gene
ENSMUSG00000006675 | P4htm
Description
prolyl 4-hydroxylase, transmembrane (endoplasmic reticulum) [Source:MGI Symbol;Acc:MGI:1921693]
Coordinates
chr9:108596899-108597667:-
Coord C1 exon
chr9:108597208-108597667
Coord A exon
chr9:108596981-108597207
Coord C2 exon
chr9:108596899-108596980
Length
227 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
GCTGTGTATTTTTCCTTTAGGTG
3' ss Score
10.82
Exon sequences
Seq C1 exon
AGTGACCGCCGGGCGCGCTGACTCTGCCGTCCGGGTCCCAGCGACTGCGCAACGCGAGCACCCCCGCGGCCCCTCCCCTGGGCGCGCGCGCGACCTGGGCGCCATGGCGGCAGCGGTGGCGACCGTGCAGCGGCCTGAGGCTGAGACAGTCGAGGAGGCCTCAAATCTTCAGTGGCCGCTACCACCGGAGCATCGCCCTTCCGGGGCAGCGACCAGACCAGGCGATAGTGAAGACGCCCCGGTGCGGCCACTGTGCAAGCCGCGGGGCATCTGTTCCCGTGCCTACTTCTTGGTGCTGATGGTGTTCGTGCACCTGTACTTGGGCAACGTGCTGGCCCTGCTGCTCTTCGTGCACTACAGCAACGGAGACGAGAGCACAGACCCCGGACCCCAGCGCCGCGAGCAGAGCCCCCAGCCAGTGCCAACCTTGGGTCCCCTCACCCGGCTGGAGGGCATCAAG
Seq A exon
GTAAGAACATCCCCTCCTCTCCCGCCCCGAGCGGAGCTTCAAGCACTGCCAAGCCGAGCCAGAAGGAACCGTGGCTCAGCTCTGGGCCACCACGGTGCCCCACGCATCACTGTGTGCGGGTCACGCGCGCGCCTACTTACTTTGCTACTGTCGCTCCCTGACACGGGACTTTTTCTTGAGCAGTGCGGCCTGGCACACCAGCTGCCTGCTGTGTATTTTTCCTTTAG
Seq C2 exon
GTGGGATATGAGCGGAAAGTCCAGGTGGTCGCGGGCAGGGATCACTTCATCCGAACCCTCAGCCTCAAGCCGCTGCTTTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006675:ENSMUST00000006853:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.540 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACCAGGCGATAGTGAAGACG
R:
GCTGAGGGTTCGGATGAAGTG
Band lengths:
308-535
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