HsaINT0178176 @ hg19
Intron Retention
Gene
ENSG00000183696 | UPP1
Description
uridine phosphorylase 1 [Source:HGNC Symbol;Acc:12576]
Coordinates
chr7:48146470-48147104:+
Coord C1 exon
chr7:48146470-48146679
Coord A exon
chr7:48146680-48146957
Coord C2 exon
chr7:48146958-48147104
Length
278 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TGTCTCCATGTGTGCCTCAGGGC
3' ss Score
8.49
Exon sequences
Seq C1 exon
GTCTGGAGCCCGGCACTGTGGTCATAACAGAGCAGGCAGTGGATACCTGCTTCAAGGCAGAGTTTGAGCAGATTGTCCTGGGGAAGCGGGTCATCCGGAAAACGGACCTTAACAAGAAGCTGGTGCAGGAGCTGTTGCTGTGTTCTGCAGAGCTGAGCGAGTTCACCACAGTGGTGGGGAACACCATGTGCACCTTGGACTTCTATGAAG
Seq A exon
GTGAGGCAGCGGATACGAGGAGGCATCTTTCAGCCAGGGAACCCTGGTCCGTCCCCTGAGCCTGCCTTCTCGCTGTGGACTGGCGTTTCCACTTGCCAGGCTGCTGTCTCAGTTACACTTCGCCCAGAGTGGTTATAATGACCCGTTTGAGTGGTCATTATAGGCAGGACCTGGATGGGTCTTGCTTGTCCCTGTGTCCTTCTGGGCATCAGTGGCGCTGATGTGTTGTAGGAGCTTCTCACATGCATGTGGTTCTCATGTCTCCATGTGTGCCTCAG
Seq C2 exon
GGCAAGGCCGTCTGGATGGGGCTCTCTGCTCCTACACGGAGAAGGACAAGCAGGCGTATCTGGAGGCAGCCTATGCAGCCGGCGTCCGCAATATCGAGATGGAGTCCTCGGTGTTTGCCGCCATGTGCAGCGCCTGCGGCCTCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000183696-UPP1:NM_181597:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.194 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0104815=PNP_UDP_1=FE(27.9=100)
A:
NA
C2:
PF0104815=PNP_UDP_1=FE(19.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGAGCAGGCAGTGGATACCT
R:
CACCGAGGACTCCATCTCGAT
Band lengths:
296-574
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
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)