HsaALTA0009318-2/2 @ hg19
Alternative 3'ss
Gene
ENSG00000167118 | URM1
Description
ubiquitin related modifier 1 [Source:HGNC Symbol;Acc:28378]
Coordinates
chr9:131133598-131140385:+
Coord C1 exon
chr9:131133598-131133694
Coord A exon
chr9:131140274-131140314
Coord C2 exon
chr9:131140315-131140385
Length
41 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
CTACCTCTTCCTATTTGCAGGAG
3' ss Score
10.23
Exon sequences
Seq C1 exon
CCGGAAATTTGCGGGCGCGCCGGAAGTTGAGGGGAGTTTCCTGCGAGCTCGGCTTCCTCAACATGGCTGCGCCCTTGTCAGTGGAGGTGGAGTTCGG
Seq A exon
GAGCTCACCTGGCTGTCTTTTTCTCTGGTCCTCCTTTGCAG
Seq C2 exon
AGGTGGTGCGGAGCTCCTGTTTGACGGTATTAAGAAACATCGAGTCACTTTGCCTGGACAGGAGGAACCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000167118-0-2,0-1-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF091386=Urm1=PU(6.2=50.0)
A:
NA
C2:
PF091386=Urm1=FE(41.4=100)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGAAGTTGAGGGGAGTTTCC
R:
CCTGTCCAGGCAAAGTGACTC
Band lengths:
139-180
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- 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)