MmuINT0114418 @ mm9
Intron Retention
Gene
ENSMUSG00000006675 | P4htm
Description
prolyl 4-hydroxylase, transmembrane (endoplasmic reticulum) [Source:MGI Symbol;Acc:MGI:1921693]
Coordinates
chr9:108483050-108484335:-
Coord C1 exon
chr9:108484173-108484335
Coord A exon
chr9:108483236-108484172
Coord C2 exon
chr9:108483050-108483235
Length
937 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
AAATACCTGCTGCCTACCAGGGT
3' ss Score
4.23
Exon sequences
Seq C1 exon
GCGTGCTGAGTCTGCAGGAATTTTCCAACATGGACCTCCGAGACTTCCACAAGTACATGAGGAGCCATAAGGCAGAATCCAATGAGCTGGTGAGGAACAGCCACCACACATGGCTCCACCAGGGAGAGGGAGCACATCACGTCATGCGTGCCATCCGCCAGAG
Seq A exon
GTGAGCACCGCAATCATCCTCCCTGGGGCAGGGTGGCCACACAAGTTCTTTGCCAGAGCCAAAGGGACAGAACTGATGGGGAACTCTGAAGAACAGGCAGCTATTGAATGCACATTAGCCTGACTGTGGGCAAACAAACTGTCTTAGAAATAAATCAAGCCTGGCATGGTGCCACATGCCTTTAATCCCAGCACTCAGGAGGCAGAGGCAAGTGGATGTCTATGAGTTCGAGGCCAGCCTGGTCTACAAAGCAAGTCCAGGACAGCCAGAGCTACAGAGAGAAAACCTGTCTTGAAAAAAAAAAAAAAACAATCAAATATTTATTTTCTGTTAATTAGGAAAATGAGAACTTATTTCTGATCAGAGAATCCCTGTCCCTTGAACAGATAGCGTCATAAGCCAGGCTAAGACCGCATGCCCGTCATCCTGCAGTCCGTAGCTAAGGCCTGGACTTGGGAGTGAAACTGTCTCAGAAACCCTGGAAAGATGAGGAAAGGACGTGGCTTGGTTGGTCAAGAGCTTGCCTAGCCTGTGATCACACACTGCAGAAAACCAGGCCTTGCTGCGCACAGCCCCAATCCCAGAACTTGGGAGGCAGAGACGGAAGCATCAGGAGTTTAAGATTGGCCTAGGCTACAGAGTTCCAGGCCGACACGGGGCTGCATCAGATCCTATCTAAATAATAACAGAAAGAAAACAAAAAATAAAAACAGAGGCTGGCGTGCTAGGATCAAATCTAAGACCTTGTACATGTTAGGCAAGCCCATGACGATTAAATCATTACATGACAGCCTTCCTGCTCTTAGAAATCAAGTCCAGCGTGGCTCGTGGGACTTCCAGGGGAGGTGAGCAGGGGTGAAGCTTGTGGCTGGCCCAGGATGCACCTTGGTCAGCTCCTTCAGGTGGCCATCCTGCTGAAATACCTGCTGCCTACCAG
Seq C2 exon
GGTCCTGCGCCTCACTCGCCTCTCCCCGGAGATTGTGGAGTTCAGTGAGCCACTACAGGTTGTACGATATGGTGAGGGAGGTCACTACCATGCCCATGTGGACAGCGGACCCGTGTACCCAGAGACCATCTGCTCCCATACCAAGCTGGTAGCCAATGAATCTGTACCGTTTGAGACCTCCTGTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006675-P4htm:NM_028944:5
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.164 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134991=EF-hand_7=PD(10.5=20.0)
A:
NA
C2:
PF136401=2OG-FeII_Oxy_3=PU(30.1=69.8)
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:
CGTGCTGAGTCTGCAGGAATT
R:
ACAGGAGGTCTCAAACGGTACA
Band lengths:
346-1283
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: