Special

MmuINT0122231 @ mm9

Intron Retention

Description
plasminogen [Source:MGI Symbol;Acc:MGI:97620]
Coordinates
chr17:12584615-12586059:+
Coord C1 exon
chr17:12584615-12584735
Coord A exon
chr17:12584736-12585940
Coord C2 exon
chr17:12585941-12586059
Length
1205 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGG
5' ss Score
7.66
3' ss Seq
AATCCTTCTTGTCCACCCAGATT
3' ss Score
7.9
Exon sequences
Seq C1 exon
AGGAATGCATGTACTGCAGTGGAGAAAAGTATGAGGGCAAAATCTCCAAGACCATGTCTGGACTTGACTGCCAGGCCTGGGATTCTCAGAGCCCACATGCTCATGGATACATCCCTGCCAA
Seq A exon
GTAAGGTCCTGCAGCCAAGCCTGGGGCTTTTTAGATATGCACTCCTCTTGAAGCAAGCAGAAACATCTGAGGAACTGAAGGCTGGGTGGCTTTGATTTTCAAGGCGGGTATCCTCCCGCTAGGCTGCATATAAAGTATGTGTTCTTGTTACTCATCACATGGTCCAGAGGCATGGGTACTTGCTAGAAAGGCAGCATCCAAGCCTTATGAATCGAATTCGAGTTATAACCAAATCCACGGCCAATTTGTATTTCTGGGAAAACGGAGACGCACACTTGGCTTGTTTATGCTCCCTTGCTCCCTTTCTCTCTACACCAGGTATGGTCTAGGTGTTCCAACTGTGATCTATAGCTATCAAGCATCTTACAGATCCCCGATATTTTATTTGTATTTACACCGAGTCATTCACAACTTCTAATCATGTTCTCAACGGTGATTATGAGTTTAAGACAGGACCAGAGGCTCCCTGCTTCAGAAAGCAAGGATGGTTTTCAGAGCAAGCACTTGTGAGGGTTCAAGGTCATTTTTTCCCCCCACAGGAAAACATCTCCCTAGAGATGTCATCCTCTTACGCCTCTTTCTGTGATGACCCTGATGTCATAACAGGGCTACTAAGACTCTCAGTAGCATGGCTAAGCCACGGCTGTCCCTGTGGACAATGGCATTGCTGAGTTTTGCATCTTCTGAAGAGCTTAAAACATGGCTCCTGCCACTGCCTTTCAAAGGCAAGCACAATAATATCCTCAAAGTATGACTAGGTCAAGCCAACTGTAGAACCCAGAAGAGGGGCAATAGACCATTGCTAGCTTTCCTCTTTGTCCTAAGCACCCAGTCTCAGAGAGGAACCAGGCACAGAGACAATCTCCCAGTTAAACCCCTGGGTTCCTGTCAAGGAGGGCTCTCTGGCCAGGTGCTTGAAGGAACATAGCTCCCAATCTTGGATTCTCTAAGCTTCCTGGTAGTGGATAGGTAGACCAGTAGGACTAGGCATCAATTTCCTGCCTGCACCATGTCACTGTCTGAAGACAGTTGCTGGGAAATGAACTCAGGACCTCTAGAATAGTTGGAGCTTGTAACCACTGAGCCATCTCTCTGTAGTCCCTATATGAGTTTTTTATTTCTAAATTATTGATATGTTATCACAGCAAATAAAAAAATGAAAGAAAACAGGAGTTAAAAAAACCAAATCCTTCTTGTCCACCCAG
Seq C2 exon
ATTTCCAAGCAAGAACCTGAAGATGAATTATTGCCGCAACCCTGACGGGGAGCCAAGGCCCTGGTGCTTCACAACAGACCCCACCAAACGCTGGGAATACTGTGACATCCCCCGCTGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000059481-Plg:NM_008877:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact

ORF disruption upon sequence inclusion

No structure available
Features
Disorder rate (Iupred):
  C1=0.049 A=NA C2=0.000
Domain overlap (PFAM):

C1:
PF0005113=Kringle=PU(48.7=92.7)
A:
NA
C2:
PF0005113=Kringle=PD(50.0=95.1)


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
LOW PSI
(plg)
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATGTACTGCAGTGGAGAAAAGT
R:
AGCGGGGGATGTCACAGTATT
Band lengths:
230-1435
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