MmuINT0118510 @ mm9
Intron Retention
Gene
ENSMUSG00000017715 | Pgs1
Description
phosphatidylglycerophosphate synthase 1 [Source:MGI Symbol;Acc:MGI:1921701]
Coordinates
chr11:117863665-117864833:+
Coord C1 exon
chr11:117863665-117863854
Coord A exon
chr11:117863855-117864654
Coord C2 exon
chr11:117864655-117864833
Length
800 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGC
5' ss Score
7.23
3' ss Seq
TGATTTTTTTTTCTTTTTAGTGC
3' ss Score
10.36
Exon sequences
Seq C1 exon
GTAGGAAGAACTCTCGCACTATGCTGCTCCCACTCCTGCAGAGGTTTCCAGAGCGCGTGCGCGTCTCCCTCTTCCACACACCAAACCTCCGAGGACTCCTCCGACTCCTTATCCCTGAGCGCTTCAATGAGACCATCGGCCTCCAGCACATCAAGGTGTACCTCTTTGACAACAACGTCATCCTGAGTGG
Seq A exon
GTGAGCACTTTGTGGTGTTCTAGCAGGGAGTCCAGTTCAAGGAGCAAGGCTACTCTGTCCCCTAAGTCCTTAGAGAAGATGCTGGGCTGTTTGTAAATGGCATTTTCGCCTCTTCAGCAGCCCCTCCTCTGGAAGGCTGGAGGACCAGGCGCTGTTCAGTACTGGCACTGACTGCTGTGCTGAGCCTCTGTGCCTAGTCTCCGTACCATTTCACTGTTTTTTTTTTTTAAACTTTTTTTTTTTTTTAATTTATTTATTTATTATATGTAAGTACACTGTAGCTGTCTTCAGACACTCCAGAAGAGAGAGTCAGATCTCCTTACGGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCCTGACCTTCGGAAGAGCAGTCGGGTGCTCTTACCCACTGAGCCATCTCACCAGCCCCATTTCACTGTTTTTCATGTGACTCTGTGACTATGCTCATTGCAGGCAAAGAGATAGATAGAGAGGACACACAACTGCCAGGCCGAGCTCAGGAGTCACAAACTGAGCTGGGTAGCAGCAGCCCAGGGCTGTGGGTTGTGACTTCACTGGGACAGTTGTGTGGACTGCAGGACCTGTTTTCCACCTGGGTTGGCTCCCTGTGTGGGAGCCATCTCTGTTCTACCAGTCACAGTGTGACCCCGGCTGATGCCCTGCGCGTGCTCAGTGGTTGCTCTGGTTTCATCTCATCATGAAATTGTCATTCCTCACCCACTTAACCCCGAGGCTTGGCCTTGTCCAGTCTTGGCTGCGCCCTCATCTGATTTTTTTTTCTTTTTAG
Seq C2 exon
TGCAAACCTGAGTGACTCATACTTCACCAACCGCCAGGACCGCTACGTGTTCTTGCAGGACTGCGCTGAGATTGCCGACTTCTTCACAGAGCTGGTGGACGCCGTGGGGGATGTATCCTTGCAGTTGCAGGGCGACGACACAGTGGAGGTTGTGGATGGGATGGTGCACCCTTACAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000017715-Pgs1:NM_133757:5
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=0.000
Domain overlap (PFAM):
C1:
PF130911=PLDc_2=FE(39.4=100)
A:
NA
C2:
PF130911=PLDc_2=PD(21.9=58.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAACTCTCGCACTATGCTGCT
R:
CCATCCACAACCTCCACTGTG
Band lengths:
342-1142
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: