MmuINT0122229 @ mm9
Intron Retention
Gene
ENSMUSG00000059481 | Plg
Description
plasminogen [Source:MGI Symbol;Acc:MGI:97620]
Coordinates
chr17:12581356-12583222:+
Coord C1 exon
chr17:12581356-12581470
Coord A exon
chr17:12581471-12583082
Coord C2 exon
chr17:12583083-12583222
Length
1612 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGC
5' ss Score
7.47
3' ss Seq
GTTCCTTTTCCATCCTGCAGCTA
3' ss Score
9.58
Exon sequences
Seq C1 exon
TGTATCTGTCAGAATGTAAGACCGGCATCGGCAACGGCTACAGAGGAACCATGTCCAGGACAAAGAGTGGTGTTGCCTGTCAAAAGTGGGGTGCCACGTTCCCCCACGTACCCAA
Seq A exon
GTAAGCTCTGCTATTTCATGTTGGTGTTCACGAGTGCATTCAGAACAATTCCACTGTTTCCAAATTAAACATGTCTATTAGTGTGAGCAGAGAACCTTTTGATGTGGATTCTGAGCAGCTGAATATTTACAACACAGAAGGAGTAAAATGGTTGGTTTCTATTAATCTTATTATATAATATCCTAGAAGTCCTAAAACATAGAAGGAGGCCCGTCAAGAGAAACTTTTGACTGAATTTTAGGCTGCCCTAGTTTTCATTCTGTTGCTGTGATAAAAATACCATGGCAAAAAAGTAACTCGGGGAGAAAGGGAGTTTACTTTAGATGCAATTACAAATTACAGTCCATCATTATGGAAAGTTACAGCCACAATAGCTTGACACTGCCAGTGACAGCAGAGCTACAGTCAAGAACAGAGAAATAAGCGCATGCATGCTTACTGGTGCTCAGTTCCTTCTTTGTACTTATACACTTCAGGATTTCCTACCTAGGGAATGGCAACGCCCAGAGTGGGCTGGATCTTCCCACTTATATTAATGTAATAAGACAATACTCTCACAGGTCTGCACATAGGTGTCGAGAGATTTTTCTCATTGAGATTCTTTTCTCCAGTGAGTCTAGTTCATGTCAAGTTGACAATCACACCAACTATAACAGAGACCAAGTATCATGAAATGATGTCTGTTTAGAGATGGGTGTGTTTCGGTTAAATGTTATGTTTGAGTTTACATGGCATGCCCACCTCACCACTGTGACCCAATGAGGAAATAAACCATGAAAACCAAATAGAAACACTCCAACTTGCGTATTATTTTAGGGTCATTCTGTTTGGGTTCCCCTAGCATTAGATGGCATTAAGTCCTTTGTGATGACTCCAGGGGCCACAGGCCCAGGCCAGGCTCTTTCATGAGCCAGCTGAGCTTCTAATCAGGTAGATGTTTCCCCAAACTGGGACATGGAGGGGCCAGAAATCGAGCTTGCCTTTTCAGACTGCAAGTTCTTGAATGTTTTATCTAGTTATCTTTGCAGTAACTTGTCACTAGAGCAGAAGCTCAGCTTTCCCCAACCCTGACCACCTAGGCTGAGTTTCAGAGAAAACCTGGCTCGTCTCTGGGATTACACAATAAACTGAGTCTTCACCTGCCACTGGCTGATGAGTCAAGCCATCTGCTTTTGCCTGATTCACTACACAAGGCTCCCCCATCAGTATCATGGGTGCTGACCCCTTCTTAGTGCATTTTTTTCCATTAAGGGCAAGTGACAGGATGTAGAAGGTTTAAGCGGAATGCCAGGGCCGGAGGTCACACAGAAGAGCAATCAGTGTTGTGGATGTGTGGATGGAGGACCACTGGCATCTGAGGCCCTGGTGTACCTCCTGCCTTCTCAGCACAGATGCTTTGGCTAGACCCAAGACTTAGCTGCCCAAAGAGTGATGATGGTAAAATGAGCTGTTTGACCCAAGCTTTCCATCTGTAGATAAAGAAGCAACAACCAGCAGCTGAAACACATTCAGAAGACAGATCTGAACCCTGGAGGCGGAGCGTAGCATCTCCTACCTTGTTAATGCACTGTTCTTTAAGATGCGGTCACCACGTTCCTTTTCCATCCTGCAG
Seq C2 exon
CTACTCTCCCAGTACACATCCCAATGAGGGACTAGAAGAGAACTACTGTAGGAACCCAGACAATGATGAACAAGGGCCTTGGTGCTACACTACAGATCCGGACAAGAGATATGACTACTGCAACATTCCTGAATGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000059481-Plg:NM_008877:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.208
Domain overlap (PFAM):
C1:
PF0002421=PAN_1=PD(1.3=2.6),PF0005113=Kringle=PU(41.8=84.6)
A:
NA
C2:
PF0005113=Kringle=PD(57.0=93.8)
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:
TCTGTCAGAATGTAAGACCGGC
R:
CATTCAGGAATGTTGCAGTAGTCA
Band lengths:
246-1858
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: