MmuINT0121211 @ mm10
Intron Retention
Gene
ENSMUSG00000031538 | Plat
Description
plasminogen activator, tissue [Source:MGI Symbol;Acc:MGI:97610]
Coordinates
chr8:22771694-22772316:+
Coord C1 exon
chr8:22771694-22771831
Coord A exon
chr8:22771832-22772205
Coord C2 exon
chr8:22772206-22772316
Length
374 bp
Sequences
Splice sites
5' ss Seq
GAAGTACGT
5' ss Score
7.46
3' ss Seq
TCCTTGTTTGCACTTGGCAGGTT
3' ss Score
6.61
Exon sequences
Seq C1 exon
CGACCTGCAGAGATGAGCCAACGCAGACAACTTACCAACAGCACCAGTCGTGGCTCCGACCCATGCTCAGAAGCAGCCGGGTGGAATATTGCCGGTGCAACAGCGGCCTGGTACAATGCCACTCAGTGCCTGTCCGAA
Seq A exon
GTACGTACCAGTGGCTCACGGAGGCCTTGTTCTTGGGTTCAGGGCCCAAACCCTTCCTCCGTGGTTCCTAGCCTATTCAGATCTTCAGCACATTTGGGGTAGGATCTGCCCAGGCGTACATGAAAGCATTCCAGAAGGCTGAGGTGGGGGTAGGAGTACGGGTGGCTTCATTTGCCCATTCTCAGTGTCCATGTCACCTATGTGAAGTGGAGCATACTTTCCATGCTTCGCGGTTGACAGGGGGGTTACTCAGGCTGTGGACTGTGGAATGGAGGCTGACATCTAAAACGCTTTGACGTTTTTTTTTAATTCTTACATTCATGGAGCTGTGTTGAAAGCAGTAGTTGAGGGTTATCCTTGTTTGCACTTGGCAG
Seq C2 exon
GTTGCAGCGAACCAAGATGCTTCAATGGGGGGACGTGTCAGCAGGCCCTGTATTTCTCTGACTTTGTCTGCCAGTGCCCTGATGGATTTGTAGGGAAACGCTGTGACATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031538:ENSMUST00000033941:4
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:
PF0003913=fn1=WD(100=80.9)
A:
NA
C2:
PF0000822=EGF=WD(100=86.8)
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:
GACCTGCAGAGATGAGCCAAC
R:
ATGTCACAGCGTTTCCCTACA
Band lengths:
246-620
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