HsaINT0126517 @ hg19
Intron Retention
Gene
ENSG00000104368 | PLAT
Description
plasminogen activator, tissue [Source:HGNC Symbol;Acc:9051]
Coordinates
chr8:42036415-42037584:-
Coord C1 exon
chr8:42037444-42037584
Coord A exon
chr8:42036582-42037443
Coord C2 exon
chr8:42036415-42036581
Length
862 bp
Sequences
Splice sites
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
3' ss Seq
TGATGGTTCTCCCCTTTCAGTGT
3' ss Score
9.87
Exon sequences
Seq C1 exon
CGCTGCTGCAGCTGAAATCGGATTCGTCCCGCTGTGCCCAGGAGAGCAGCGTGGTCCGCACTGTGTGCCTTCCCCCGGCGGACCTGCAGCTGCCGGACTGGACGGAGTGTGAGCTCTCCGGCTACGGCAAGCATGAGGCCT
Seq A exon
GTAAGTGGAAGGAAGTCTCGGCCCCATCCTGTCTGCGGGACAGCAGGGGAGGCTGCGGTCCACCAGAGGAAAATGGGGTCAGGAGACCGAAGTTCCAGCCCCGGGTCAGGCACTGACGCCAGTCCCGTCTCCCTGTGTCGTGGGGGCCCGTCTCTGCTGTCTCTGCCTCACAGGGACACTGCAGGCCAGGAAAGGACACAACAGTATGAGGGCCTCGAAGTGCTGCAGGTGTTGGGAAGGTTCTGAGTAGGAAGTGGAGTACAGTCGCTAAGCGTGTGGGTTCTGGGAAGCTGGAGTTACAAAGACCCGATTTCAAATCCCACTTGCTGAGCTGTGTGACCGTGGACATGGATTTTTATTTTGAACTGCTCCCAGCCTCAGTTTCCTCGTTGGTAAAGTGGAGATAGAACTATCTCCCTAATTAGATTAGGAGGGTTAAATGAGATAATATTGAACGAATGGATGTCAGCTGGGGTGATTTTGTCCCCCAGGAAACGTTTGGCGAGGTCTGGAGACGTTTTTGGTTGTTACAGTTTAGGGTGAGGGTTAACGCCGGCCTTCAGTGAGTGCAGCCAGGGATGCTGCACACTGCAGGGCTCGGGACTGTCCCCATCCCCCACAACAGGGACCTCCCTGGTCCGAAGCATCAGCAGTGCCACTACGGAGAGGCTGTGGGTTCAATCCCGGAATCCTGCTGTTTTTGTGGGTCAAAACGATAAAATACCAGCAGTGTCATAGGATTCGACCTAATACATGTTGAATCTTGATCAATGTTAGCTATTATTGGAAAATTTGGCTTTCTCTTTCAAAAACGTTTATAAATAACTTTCCCTAAAACCATATGATGGTTCTCCCCTTTCAG
Seq C2 exon
TGTCTCCTTTCTATTCGGAGCGGCTGAAGGAGGCTCATGTCAGACTGTACCCATCCAGCCGCTGCACATCACAACATTTACTTAACAGAACAGTCACCGACAACATGCTGTGTGCTGGAGACACTCGGAGCGGCGGGCCCCAGGCAAACTTGCACGACGCCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000104368-PLAT:NM_033011:11
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=0.084
Domain overlap (PFAM):
C1:
PF0005113=Kringle=PD(15.6=55.6)
A:
NA
C2:
PF0008921=Trypsin=FE(26.3=100),PF0008921=Trypsin=PU(5.6=7.1)
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:
CTGCTGCAGCTGAAATCGGAT
R:
GCTCCGAGTGTCTCCAGCA
Band lengths:
270-1132
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)