HsaINT0126532 @ hg19
Intron Retention
Gene
ENSG00000122861 | PLAU
Description
plasminogen activator, urokinase [Source:HGNC Symbol;Acc:9052]
Coordinates
chr10:75673297-75673886:+
Coord C1 exon
chr10:75673297-75673516
Coord A exon
chr10:75673517-75673737
Coord C2 exon
chr10:75673738-75673886
Length
221 bp
Sequences
Splice sites
5' ss Seq
CATGTACGG
5' ss Score
4.57
3' ss Seq
ATGGGTATCTTCTCCCACAGTGA
3' ss Score
7.16
Exon sequences
Seq C1 exon
GAAAAAAGCCCTCCTCTCCTCCAGAAGAATTAAAATTTCAGTGTGGCCAAAAGACTCTGAGGCCCCGCTTTAAGATTATTGGGGGAGAATTCACCACCATCGAGAACCAGCCCTGGTTTGCGGCCATCTACAGGAGGCACCGGGGGGGCTCTGTCACCTACGTGTGTGGAGGCAGCCTCATCAGCCCTTGCTGGGTGATCAGCGCCACACACTGCTTCAT
Seq A exon
GTACGGCCCTGGGTTTCTCCTCTTCGACTCTTCTGCCCCACCCCAAGCACATCCCTTTCTCCTTCCCAGCAAAGTGTTCCGCCTCATTTCTCCCTCATCTGCCCCTGTCCATGCAGCCCATGGCCTTGGGGACAAGTCGTGCTTTGAGGCCTCTAGGGAGGGAAGGAAGAAGTGGCAGATTTCATGGGACTAAGCTGTTTGATGGGTATCTTCTCCCACAG
Seq C2 exon
TGATTACCCAAAGAAGGAGGACTACATCGTCTACCTGGGTCGCTCAAGGCTTAACTCCAACACGCAAGGGGAGATGAAGTTTGAGGTGGAAAACCTCATCCTACACAAGGACTACAGCGCTGACACGCTTGCTCACCACAACGACATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000122861-PLAU:NM_002658:7
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.014 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(19.9=64.9)
A:
NA
C2:
PF0008921=Trypsin=FE(20.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAAGCCCTCCTCTCCTCCAG
R:
TTCATCTCCCCTTGCGTGTTG
Band lengths:
295-516
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)