MmuINT0122226 @ mm9
Intron Retention
Gene
ENSMUSG00000059481 | Plg
Description
plasminogen [Source:MGI Symbol;Acc:MGI:97620]
Coordinates
chr17:12611503-12612250:+
Coord C1 exon
chr17:12611503-12611648
Coord A exon
chr17:12611649-12611831
Coord C2 exon
chr17:12611832-12612250
Length
183 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
CTCTTCCCTCCCTCATCTAGGGC
3' ss Score
11.49
Exon sequences
Seq C1 exon
GGACTTTCGGTGCCGGTCGTCTCAAGGAGGCTCAGCTGCCTGTGATTGAGAACAAGGTGTGCAACCGCGTCGAGTATCTGAACAACAGAGTCAAATCCACGGAGCTCTGTGCCGGGCAACTGGCTGGTGGCGTCGACAGCTGCCAG
Seq A exon
GTAAGAGAAGAGACCGAGATGGTCTTGGGTTGACACGTCTCTGCCCCTTGGACTTTCAGTCTGAGAGGATTTGACAACTCATGGCCTGCGGAGGAATCCCACAGAGAGACAACACAAAGATAGCCTCCCATAATATACCGGTGTAGCTCACTTCTCATATGGACTCTTCCCTCCCTCATCTAG
Seq C2 exon
GGCGACAGTGGAGGACCTCTGGTTTGCTTCGAGAAGGACAAGTACATTTTACAAGGAGTCACTTCTTGGGGTCTTGGCTGTGCTCGCCCCAATAAGCCTGGTGTCTACGTTCGTGTCTCACGGTTTGTTGATTGGATTGAAAGGGAGATGAGGAATAACTGACTAGGTGGAAGGCCGAGCAAAACCTCTGCTTACTAAAGCTTACTGAATATGGGGAGAGGGCTTAGGGTGTTTGGAAAAACTGACAGTAATCAAACTGGGACACTACACTGAACCACAGCTTCCTGTCGCCCCTCAGCCCCTCCCCTTTTTTTGTATTATTGTGGGTAAAATTTTCCTGTCTGTGGACTTCTGGATTTTGTGACAATAGACCATCACTGCTGTGACCTTTGTTGAAAATAAACTCGATACTTACTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000059481-Plg:NM_008877:18
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(21.4=100)
A:
NA
C2:
PF0008921=Trypsin=PD(20.1=83.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCAAATCCACGGAGCTCTGT
R:
TAAGCAGAGGTTTTGCTCGGC
Band lengths:
251-434
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: