MmuINT0122230 @ mm9
Intron Retention
Gene
ENSMUSG00000059481 | Plg
Description
plasminogen [Source:MGI Symbol;Acc:MGI:97620]
Coordinates
chr17:12583083-12584735:+
Coord C1 exon
chr17:12583083-12583222
Coord A exon
chr17:12583223-12584614
Coord C2 exon
chr17:12584615-12584735
Length
1392 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGG
5' ss Score
8.76
3' ss Seq
TCTCTTCCCACACTGCACAGAGG
3' ss Score
6.3
Exon sequences
Seq C1 exon
CTACTCTCCCAGTACACATCCCAATGAGGGACTAGAAGAGAACTACTGTAGGAACCCAGACAATGATGAACAAGGGCCTTGGTGCTACACTACAGATCCGGACAAGAGATATGACTACTGCAACATTCCTGAATGTGAAG
Seq A exon
GTAGGGGTGGATCTAGAAAACCCCCTTCTGTCTGCTTGTCACCTGGCATATGCTATACAGCCATTTCTCAGAAACATCATTAAAAAAAAAAGATTTGTGTTGTACACTACAAAATGAAGTAATGAGCTTGCTCTTATGAAGGAGTCCCAGTTCTGACCTGAACTATCTTTATTAAAATGTTATTTCAACATATGCACATGGATAGACAGATCTAAAACTTGCATACAATTTCTTTGGTTAAAATTCTACACGGTGCAAAACTCCAAAGATGGTTGCTAGTAAATAGCTAAATTAAAACCATGAAGCCACTGGAATTCAAGCACACAGGAGGAATGATCTCATGTGAGCTATTCTGTTGAGATGGAAGTTAAACAGCACACCAGTTTGTGTGTGTCGGCATGCCTTCTTCTAACGGGCCCATCGGCTTCTCAAAGAGCCTCAAAGGTTAATGCTAAAAAAGCATTAAAACATCAGATGGGAGAGCATCTACGTTTCCTATTTCTAGGTGTGTTTATTAGAGTAAGAAAAAAGAGCCAGGTGGTGCTTATGCAGCAGCACGGGCATGTTTCAGGGGCCAACTCCTTTCTTACCACTTTGTCTATGTGGACAGAGGAGCGCCTGCATTTGGAAATGGATGGTCACAGGCTATTTGGCTTTTACATCCCATGAACACAGGCTTTTTATATCAAATTCACAGATTTTTTTTTAATGCTACCATAAAAATTCCAGTTGTGTGTTATTTCTCATCAACATGGGACTTTAATGATTCCAAATCCAAGTCTTATTTTTAAAATAAATTAGACTGCAAAAAAGAAAAACCAAATACCACACCCCTCCACCCCTCACATATACATGCCCCAATCAGTCATGTTTCTCAGCAATATGCAAACAGAAGCTTGACTGCTTAAGGTTGAGTGGGTTTCTCCAATGGCACTAGTCTCACTGGGGACAAACAAACAAACAAACAAAAAAAACCCAGCAGAAAGTCCCAATGGTTCCCATATGTCTGTCACTCATCAAGTGATCAGAATAAGTTCATTGAATTTTAAAAAACCACATGCCAAATTTAAAATGGAGAATGTATAGGCTTCTGAGAGCATGTGCCTTCCCCATGGGAGCCTCCCAGTTTGAGGTCATGTATCAGAGTTTCTGACTGCCATAGTTAAGGTGACACAGACTCATAAAGCCCAAATACATTGTCTCAGAAAAAGATGGGGACCCTGACCGCATCAGAACATTATAAGTCTTTACTGCCAAGTGGTTACTGGGAGTCAGGTATGAATGGGTGGCAGGAAGCACTGGAGACCTCTCTAGAGGGACTCCGGTTTATGTTCCACTGTGTTTCAATGTCGGTTTCCCTTTCTCTCTCCCTTCTCTTCCCACACTGCACAG
Seq C2 exon
AGGAATGCATGTACTGCAGTGGAGAAAAGTATGAGGGCAAAATCTCCAAGACCATGTCTGGACTTGACTGCCAGGCCTGGGATTCTCAGAGCCCACATGCTCATGGATACATCCCTGCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000059481-Plg:NM_008877:5
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.208 A=NA C2=0.049
Domain overlap (PFAM):
C1:
PF0005113=Kringle=PD(57.0=93.8)
A:
NA
C2:
PF0005113=Kringle=PU(48.7=92.7)
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:
CTACTCTCCCAGTACACATCCCA
R:
GGATGTATCCATGAGCATGTGGG
Band lengths:
254-1646
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: