HsaINT0126521 @ hg19
Intron Retention
Gene
ENSG00000104368 | PLAT
Description
plasminogen activator, tissue [Source:HGNC Symbol;Acc:9051]
Coordinates
chr8:42044916-42045534:-
Coord C1 exon
chr8:42045424-42045534
Coord A exon
chr8:42045091-42045423
Coord C2 exon
chr8:42044916-42045090
Length
333 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGT
5' ss Score
8.83
3' ss Seq
CATGCCCTGCTCTCTGTCAGATA
3' ss Score
8.7
Exon sequences
Seq C1 exon
GTTGCAGCGAGCCAAGGTGTTTCAACGGGGGCACCTGCCAGCAGGCCCTGTACTTCTCAGATTTCGTGTGCCAGTGCCCCGAAGGATTTGCTGGGAAGTGCTGTGAAATAG
Seq A exon
GTGAGTAGGTGAGAGCACGTGAAACGAGCTGAAATCCCACCTCTCCAGTCTCCCCCGCCCCCGGAAGGAAAGGCAGGGTGCGATGGCAGGGCCAGGGGTGGGGGCCAGGGACAGGGAAGGCGCTTCTGCCATGGGTCAGGAAGCACAGTGCCACACAGCAAGCAGAGCCTAGGTGTGACCCTGAATCCAGGCTGGCACCCTTGCCACCCAGCCTGTGGCTTCCGAGCCAGCCTGCATCAGGCCTGGGGGAGGACGGGGCAGAGAGGGGAGCCTCCTGAGGGCTGAATGAAAGGGGACTCCCATGTGAGGCATCCATGCCCTGCTCTCTGTCAG
Seq C2 exon
ATACCAGGGCCACGTGCTACGAGGACCAGGGCATCAGCTACAGGGGCACGTGGAGCACAGCGGAGAGTGGCGCCGAGTGCACCAACTGGAACAGCAGCGCGTTGGCCCAGAAGCCCTACAGCGGGCGGAGGCCAGACGCCATCAGGCTGGGCCTGGGGAACCACAACTACTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000104368-PLAT:NM_033011:4
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:
PF0000822=EGF=WD(100=84.2)
A:
NA
C2:
PF0005113=Kringle=PU(64.6=89.8)
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:
GTTGCAGCGAGCCAAGGT
R:
CTGCAGTAGTTGTGGTTCCCC
Band lengths:
286-619
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)