HsaINT0126525 @ hg19
Intron Retention
Gene
ENSG00000104368 | PLAT
Description
plasminogen activator, tissue [Source:HGNC Symbol;Acc:9051]
Coordinates
chr8:42038008-42039540:-
Coord C1 exon
chr8:42039455-42039540
Coord A exon
chr8:42038204-42039454
Coord C2 exon
chr8:42038008-42038203
Length
1251 bp
Sequences
Splice sites
5' ss Seq
GCTGTAAGG
5' ss Score
4.86
3' ss Seq
CCTCGTCCTTTCCTCCCCAGCCA
3' ss Score
9.62
Exon sequences
Seq C1 exon
GAATCCTGATGGGGATGCCAAGCCCTGGTGCCACGTGCTGAAGAACCGCAGGCTGACGTGGGAGTACTGTGATGTGCCCTCCTGCT
Seq A exon
GTAAGGGCTGGGCCCCGGCTGCCTCCCTGCACCTGGTCTCCCTTCTTCACCATCTCCTCGCCACTTTCTAGGCCTTCATGGCTGTCTGGTGCAGACTGTGTGCCTACCAGACTTCCAGGCTGGGTGGGGAGGGGGCTTCCATGACTGAAGCCACGGTGGGTGGGCGGGTGTCCATGACCCATGCATGGGGGTGGTGGGGAGGGGCAAGAAGAAAGAAAAGAACACAGCAACCTCTCTGAGAAGTCAGTAGGCTCTACCCGGCTCTCTCTAGACGCCTCTATTGGTGTTGCTGAGAGTAATGGGGAATGAGGAGGAGGCCTCGCATGCATGGCTCCTTAGATAATAAAGTGCCTTCACCACATTTGTCCAACAGCGTGGTGGAGGTGGTCTTCCTACCTCCAGTTTACTGAGTAGGAAGCAGTCTCCCAGACGCCAGGTGGCCTGCCCAAGCTCGCTGGGCACCGGGAGGTAAAGCTAGGGCCTGCCCTCATGCCCTCTGACCCCAATGGCATGTACTTCCACTGTGAGATCTTCCACGTTTCCTGTTGACCTATTTCACACAGGGGAGCTGGCTCATGATGTGGGTGAGAGATAGGAGATTCAAGTTGGTGCATATTGCTAAAAAATGAAACTTTAGTTTGGAAATGGCCAGAGAGTAGGTTATTAATCACCTCCTGTGAACACAGATCAGCCAGAATGTTCCCCAAGGAACACAAGTCCAACTGGGACGATGAGACACAGACCACCAGCTAACTCACACCCAAGGGCATTAGTGTGAGTCCTCAGTGGTCCGTGTCCCTAAGCTCCTCAGAGCTGAGCAGGTGGGGACGTCAGGAAAGCTTTGCGAGGAGGCAGGATTGCACCTGGGCCTTGAAGCATGGGTAAGGTTGGACAGATGGAAAAGAAATGAGCAGACATTCCACAGAAGGAAGCTGCAATTCTTCATTTCTTAGGCCAGGAAATGGCTGTAGGAAAACATTAGAAGGAATGAAGGATGGCAGATCCCCAGTTTTGGAGTCAAACATACTTGGGAACTAATCCAGGTGCCATTGCAACCTTGGGCAAAAACGTCTCCGCCTCCTGAAACTTATCGCTGTGGGAACTAAAGAGAATGTATGGACAACATTCGGCATGCTGATCCCACCAAGTGAAAGTTGTGGTTTTACAGCCATGCTGATGGCCTCCTCACTCTACCTACACACGTGCAGGAGGCCTGTGGGACTGACTGCCTCCTCGTCCTTTCCTCCCCAG
Seq C2 exon
CCACCTGCGGCCTGAGACAGTACAGCCAGCCTCAGTTTCGCATCAAAGGAGGGCTCTTCGCCGACATCGCCTCCCACCCCTGGCAGGCTGCCATCTTTGCCAAGCACAGGAGGTCGCCCGGAGAGCGGTTCCTGTGCGGGGGCATACTCATCAGCTCCTGCTGGATTCTCTCTGCCGCCCACTGCTTCCAGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000104368-PLAT:NM_033011:8
Average complexity
IR-S
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:
PF0005113=Kringle=PD(34.1=93.3)
A:
NA
C2:
PF0008921=Trypsin=PU(20.7=77.3)
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:
GAATCCTGATGGGGATGCCAA
R:
CTCTCCTGGAAGCAGTGGGC
Band lengths:
282-1533
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
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)