Special

MmuINT0121211 @ mm9

Intron Retention

Gene
Description
plasminogen activator, tissue [Source:MGI Symbol;Acc:MGI:97610]
Coordinates
chr8:23882166-23882788:+
Coord C1 exon
chr8:23882166-23882303
Coord A exon
chr8:23882304-23882677
Coord C2 exon
chr8:23882678-23882788
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-Plat:NM_008872:4
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:
PF0003913=fn1=WD(100=80.9)
A:
NA
C2:
PF0000822=EGF=WD(100=86.8)


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
LOW PSI
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
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types