HsaINT0126526 @ hg38
Intron Retention
Gene
ENSG00000104368 | PLAT
Description
plasminogen activator, tissue type [Source:HGNC Symbol;Acc:HGNC:9051]
Coordinates
chr8:42180242-42180685:-
Coord C1 exon
chr8:42180490-42180685
Coord A exon
chr8:42180379-42180489
Coord C2 exon
chr8:42180242-42180378
Length
111 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGG
5' ss Score
7.81
3' ss Seq
TAAGGCTGTTTCTCCACCAGGTT
3' ss Score
7.97
Exon sequences
Seq C1 exon
CCACCTGCGGCCTGAGACAGTACAGCCAGCCTCAGTTTCGCATCAAAGGAGGGCTCTTCGCCGACATCGCCTCCCACCCCTGGCAGGCTGCCATCTTTGCCAAGCACAGGAGGTCGCCCGGAGAGCGGTTCCTGTGCGGGGGCATACTCATCAGCTCCTGCTGGATTCTCTCTGCCGCCCACTGCTTCCAGGAGAG
Seq A exon
GTAGGGGCTCGGAAACCCAGTTGGTTTTTCCACCCTCTAACGCCTAGAAACCAAGCCCTTTAGGGGAAATCCCACAGCAAAAAAAGCATTCTAAGGCTGTTTCTCCACCAG
Seq C2 exon
GTTTCCGCCCCACCACCTGACGGTGATCTTGGGCAGAACATACCGGGTGGTCCCTGGCGAGGAGGAGCAGAAATTTGAAGTCGAAAAATACATTGTCCATAAGGAATTCGATGATGACACTTACGACAATGACATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000104368:ENST00000220809:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(20.7=77.3)
A:
NA
C2:
PF0008921=Trypsin=FE(18.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGCCTCAGTTTCGCATCAA
R:
AAATTTCTGCTCCTCCTCGCC
Band lengths:
247-358
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development