MmuINT0121205 @ mm10
Intron Retention
Gene
ENSMUSG00000031538 | Plat
Description
plasminogen activator, tissue [Source:MGI Symbol;Acc:MGI:97610]
Coordinates
chr8:22778103-22778549:+
Coord C1 exon
chr8:22778103-22778298
Coord A exon
chr8:22778299-22778412
Coord C2 exon
chr8:22778413-22778549
Length
114 bp
Sequences
Splice sites
5' ss Seq
GAGGTACGG
5' ss Score
9.4
3' ss Seq
TAATGCTGTTTTTCCACCAGGTT
3' ss Score
9.42
Exon sequences
Seq C1 exon
CCACCTGTGGCCTGAGGCAGTACAAACGGCCTCAGTTTAGAATTAAAGGAGGACTCTACACAGACATCACCTCACACCCTTGGCAGGCTGCCATCTTTGTCAAGAACAAGAGGTCTCCTGGAGAGAGATTCCTTTGTGGAGGGGTGCTGATCAGTTCCTGCTGGGTGCTGTCAGCTGCCCACTGCTTTCTAGAGAG
Seq A exon
GTACGGGTTTCCTAGTCCCCAAGGCCTTGGGGCCAGCCCATGAGAGTAGCCCACAGCAGTAAACATCAATTAAAAACAAAATGATAGAACATGCTAATGCTGTTTTTCCACCAG
Seq C2 exon
GTTCCCCCCCAATCATCTTAAAGTGGTCTTGGGCAGAACATACAGGGTGGTCCCCGGAGAGGAAGAACAGACATTTGAGATTGAAAAATACATAGTCCATGAGGAATTTGATGACGATACTTATGACAACGACATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031538:ENSMUST00000033941:10
Average complexity
IR
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:
PF0008921=Trypsin=PU(20.8=77.3)
A:
NA
C2:
PF0008921=Trypsin=FE(18.8=100)
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:
GCAGTACAAACGGCCTCAGTT
R:
TGTCTGTTCTTCCTCTCCGGG
Band lengths:
253-367
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