MmuINT0121207 @ mm9
Intron Retention
Gene
ENSMUSG00000031538 | Plat
Description
plasminogen activator, tissue [Source:MGI Symbol;Acc:MGI:97610]
Coordinates
chr8:23889127-23891061:+
Coord C1 exon
chr8:23889127-23889267
Coord A exon
chr8:23889268-23890897
Coord C2 exon
chr8:23890898-23891061
Length
1630 bp
Sequences
Splice sites
5' ss Seq
CATGTAAGT
5' ss Score
8.31
3' ss Seq
ATCTAAATGTTCTCTTTCAGCGT
3' ss Score
9.66
Exon sequences
Seq C1 exon
CATTACTGCAGCTGAGGTCACAGTCCAAGCAATGTGCCCAAGAGAGCAGCTCTGTTGGCACTGCCTGCCTCCCTGACCCCAACCTGCAGCTCCCTGACTGGACAGAGTGTGAGCTTTCTGGCTACGGCAAGCATGAGGCAT
Seq A exon
GTAAGTGTCTGGAAGTCTTGGTCCCATCCTTGTCTGTGGTGTGGCAGTCAGGCTGATGGGAGGAAATGTGGTCATAAAGTGTCCTGGTCCTAATTCTGGCATGACACAGAAAAATGTAGGCGAGGGCTTGGCCTGTCATACTACCATCTACTTCCTTGCGTTACGGGGACACTGTGCAGGACACAGTAAGTTGGGACAGGGAAATGTTCAAAGGAGCTTTACAGTCCAGTGGAGGCGGGGAGAAGGGTCATGGGTGTTTGTTCTTAGACAATGGAGTGGCACAGTTCAAATCCCAGACATGCATCTGGCTTAGCTGTGGGACCCTGGATGTTTCTTTCATTCAGCTTCCTAATAATGTCAACAAGTAAGAGATAAATTAATCTAAAGATGGGAAAACTTTGTTCACGCTCATAGGTATTAGAAGTTTCAGATCATGATCAGTTGGCCCAGTCTGTGGGCCTGTGGTAAAACAGCGCATCATAGGGGGAAGGACAGCACGCCACAGGAGGGAGGACAGCAGATCATAGAAGGGAGGATAGCACACCATAGGAGCACAGCCCATGACAGAAGCACAGACCATCACAGGAGGGAGGACAGCACACCACAGGAACACAGCACATCATAGGAGGGAGGACAGCATGCCACAGGAGGGAGGACAGAATGCCACAGGAGGGAGGACAGCATGCCACAGGAGGGAGGACAGCCCGCCACAGGAGGGAGGACAGCCCGCCACAGGAGGGAGGACAGCACGCCACAGGAGGGAGGACAGCATAGCACCCCACAGGAACACAGCACACCACAGGAGGACAGCACATCATAGGAGGAGCCCACAGCAATGGAGCAATTCACCTTGTAGGAACACGCAAACAAAGGGAGAGCCTGGGTCTCAACATCTCTCCCAAAGGCTTAACTGCCTTTGCCCAGAGCCACTTCCTAAAGCTCTGCCATCTTCAAAGAATACCAAGGTCTAGGACCAAGCCTTCAGCACACTGGCCTTTGAAGGAGCAATGATCCAAGCCAGATATTCATTTGTATTATGTTATGAGGGGGAGGGTTGTCTCCCAATGTTTCCTAGAGTGGTTTCAAATTTGTAATCCTATCTAAGCATCCCAAGATCACAGGTCTGGACCATTAGATTGACCTATAGCACTTCTTTTTTTTTTTTTTTTTTCAAGCCTCAGTTTCCTCGCTGCCAAAGTAGAAACAGAAGTAGCTCCCTGATTAAATGATAAGGCATAAATACTACAATGCATGATTAAATAGATGGTTCTTACTTGGGGAGATCTCACTGCCTGGGCCACATTTGGCAGCGTCTGGAGTCCTTGTGGCCATGATGTCACATGTGTGGCTGAAGGCTGATCCTGACCTTTGGTTAGCAGACAGAGGCCACCAAGCATCTGTGGTATACAGGACATTCCTTATGACAGATAGCTATCTAGCAAACTGTCCGTGGCACTACTGACCAGCCTGATCTCGGCCTAGAGGGCTGTTGGAGGTTCCAAGAGTAAGTTAGGGTCATAGCCCAGGGGCAACCCGATTTATGTTAGCTTTGACCAGGAAGCTTGGCTTTCTCGTTCCAAAAAGCTTGAAAACAACATTTAGACCCTAAGATCTAAATGTTCTCTTTCAG
Seq C2 exon
CGTCTCCATTCTTCTCTGACCGGCTGAAGGAGGCTCACGTCAGACTGTACCCGTCCAGCCGCTGCACCTCACAGCATCTGTTTAATAAAACCGTCACGAACAACATGCTGTGCGCTGGAGACACCCGGAGCGGAGGCAACCAAGACCTCCACGATGCATGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031538-Plat:NM_008872:12
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=0.091
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(19.2=100)
A:
NA
C2:
PF0008921=Trypsin=FE(22.0=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:
TACTGCAGCTGAGGTCACAGT
R:
CTGGCATGCATCGTGGAGG
Band lengths:
302-1932
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: