MmuINT0121213 @ mm10
Intron Retention
Gene
ENSMUSG00000031538 | Plat
Description
plasminogen activator, tissue [Source:MGI Symbol;Acc:MGI:97610]
Coordinates
chr8:22772636-22773708:+
Coord C1 exon
chr8:22772636-22772810
Coord A exon
chr8:22772811-22773616
Coord C2 exon
chr8:22773617-22773708
Length
806 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
TCCCTGGCTGATTTTTTCAGAAA
3' ss Score
6.99
Exon sequences
Seq C1 exon
ATACCAGAGCAACATGCTTTGAGGAGCAGGGCATCACCTACAGAGGCACGTGGAGCACAGCAGAAAGTGGGGCTGAGTGCATCAACTGGAATAGCAGTGTTCTGTCGCTGAAGCCCTACAATGCAAGGAGGCCAAATGCCATCAAGCTGGGCCTTGGGAATCACAATTACTGCAG
Seq A exon
GTAAAAAGTGCTTTCCACAGGAGGAGAGTCTCAGGTGAGAAGTATTACATTCAGGGAAGGCCTGGCCAATCAGCCACGTATTCTAGATAGACAGGTAGATGGATAGCTAGTTATGTAGCTATGTATATGTATATATGTGGGCATACATATATAGATGGGTAGAGAAAGGATAGATACATACACACATGAATACATACATACATACATACATACATATATACATAGGTAGATCAATGCATTCATATATTGATGATTGATATATTGACACATAAATGGTAGACAGAGGTTGACTTGAAGGCATCAATTCATATCTCTGTGTGGACATCTGAATCTGTGGTCGTAGGGTAGACCAGCAGGCTGGGAACACGGGCACAAATTGCCATTTCTGTTTTGATGCTTTTAGACCTTAAACTGATTAGACAAGTACACTTTCCTTGTCTGGGATAATTTACTTAAACTCAACCGACTGAGGATGTTCACTACAGTTACAAAACACATTTATAGCAGTGCCTGGATCACTGTTTAATTACATGCCAAGACTACAGGTCAGCCATGTTGACACATAGGCACTTATTGTATATTTTCATCAACTTGGCACTCATACACATTTCCTTATACCCTGCTTAGTTCCCCCAAAGAAAGAGCATAGTAAAACCGTATTTCTACCTAACATCATAAAACTTGACAGTGTTCAGCCCAAGATATGCTAACCCTACCCCCCCTCCCAAAGCATGCCCAGTCCTTTTGCCAGGAAGGAAGTCTTCCTGTTCAACCCCTCACTCTTCTTCCCTGGCTGATTTTTTCAG
Seq C2 exon
AAACCCAGACCGAGACTTGAAGCCCTGGTGCTATGTCTTTAAGGCAGGGAAGTATACCACGGAGTTCTGTAGCACACCAGCTTGCCCTAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031538:ENSMUST00000033941:6
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:
PF0005113=Kringle=PU(64.6=89.8)
A:
NA
C2:
PF0005113=Kringle=PD(34.1=87.5)
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:
GCAACATGCTTTGAGGAGC
R:
TTAGGGCAAGCTGGTGTGCTA
Band lengths:
257-1063
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