MmuINT1027719 @ mm10
Intron Retention
Gene
ENSMUSG00000015090 | Ptgds
Description
prostaglandin D2 synthase (brain) [Source:MGI Symbol;Acc:MGI:99261]
Coordinates
chr2:25469560-25470046:-
Coord C1 exon
chr2:25470010-25470046
Coord A exon
chr2:25469735-25470009
Coord C2 exon
chr2:25469560-25469734
Length
275 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGT
5' ss Score
9.81
3' ss Seq
CCTCTGCTCCTTCTGCCCAGTTT
3' ss Score
7.13
Exon sequences
Seq C1 exon
CGCCAGAGTACACACCCGGCACCATCCCCACTGTGAG
Seq A exon
GTATGTGGGCTTTGCCGGCAGGAGTGGGCAAGGTCTGAGCCAGTTCTGCCTCTGGAGCTGGGGATGGGGGCAGGCAGAGGTTTCTTCTTCTAGGAGGTGTGGGGCTCAGCTGGAACCTCTTACATAATTAGCAGATGAGGCTGCAGCTGGGACAGCCACCCTCCCTCACACCAACATCACGAGCCTTCAGTGGGCAGTCCTTGGGCTTTGGGTGGAGGCCAAGCCTGACTCATAAATAGGGGGTCTCCACAGTGCCCTCTGCTCCTTCTGCCCAG
Seq C2 exon
TTTTCCTTGCTTTGTCCACATTGCTGGCATCAGGCCCAGGCACCTGCTCTGCTCTGAGCAAATGGCTGCTCTTCGCATGCTGTGGATGGGTTTGGTCCTCCTGGGTCTCTTGGGATTCCCACAGACCCCAGCCCAGGGCCATGACACAGTGCAGCCCAACTTTCAACAAGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015090:ENSMUST00000114251:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.079
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCCAGAGTACACACCCGG
R:
CTTGTCTTGTTGAAAGTTGGGCTG
Band lengths:
212-487
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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