MmuINT0121212 @ mm9
Intron Retention
Gene
ENSMUSG00000031538 | Plat
Description
plasminogen activator, tissue [Source:MGI Symbol;Acc:MGI:97610]
Coordinates
chr8:23882678-23883282:+
Coord C1 exon
chr8:23882678-23882788
Coord A exon
chr8:23882789-23883107
Coord C2 exon
chr8:23883108-23883282
Length
319 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGT
5' ss Score
8.83
3' ss Seq
GATGTCCTTCTGTCAATCAGATA
3' ss Score
6.72
Exon sequences
Seq C1 exon
GTTGCAGCGAACCAAGATGCTTCAATGGGGGGACGTGTCAGCAGGCCCTGTATTTCTCTGACTTTGTCTGCCAGTGCCCTGATGGATTTGTAGGGAAACGCTGTGACATAG
Seq A exon
GTGAGTGCTTAGGTGGGTGGGTGTGAGAGACATTCTGAAATTCTGCCTCTCAAATGGACCAGAAAAGGAAAGAAAATCCTTGCTGGAGGGCAGGGCCCACAGAAGGGGAGCTGAGGTCATTTAGAGACTTGACACTATTGGGCCCAGTGGTCAGAGCCTGAAGTGACAATCCAGAGTCTGGCTTGGCTGTAGCACTTCTAGTGACCACGTCCACCCAGCTCACTTTGAGCACCGGCAGCTTCGGCAACAGCCTGCTCCACGGTGCTGAGGCAAGGCAGAGGATCCCTTGAGAGCCTTTTGATGTCCTTCTGTCAATCAG
Seq C2 exon
ATACCAGAGCAACATGCTTTGAGGAGCAGGGCATCACCTACAGAGGCACGTGGAGCACAGCAGAAAGTGGGGCTGAGTGCATCAACTGGAATAGCAGTGTTCTGTCGCTGAAGCCCTACAATGCAAGGAGGCCAAATGCCATCAAGCTGGGCCTTGGGAATCACAATTACTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031538-Plat:NM_008872:5
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:
PF0000822=EGF=WD(100=86.8)
A:
NA
C2:
PF0005113=Kringle=PU(64.6=89.8)
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:
GTTGCAGCGAACCAAGATG
R:
CTGCAGTAATTGTGATTCCCAAGG
Band lengths:
286-605
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: