HsaINT0176010 @ hg19
Intron Retention
Gene
ENSG00000130985 | UBA1
Description
ubiquitin-like modifier activating enzyme 1 [Source:HGNC Symbol;Acc:12469]
Coordinates
chrX:47073936-47074527:+
Coord C1 exon
chrX:47073936-47074036
Coord A exon
chrX:47074037-47074192
Coord C2 exon
chrX:47074193-47074527
Length
156 bp
Sequences
Splice sites
5' ss Seq
GCCGTGAGT
5' ss Score
8.56
3' ss Seq
TCCCATCCCCCTATCCCCAGGAT
3' ss Score
10.35
Exon sequences
Seq C1 exon
ACAGAGCACAAATTAGAGATCACCATGCTGTCCCAGGGCGTGTCCATGCTCTATTCCTTCTTCATGCCAGCTGCCAAGCTCAAGGAACGGTTGGATCAGCC
Seq A exon
GTGAGTTGGACACTGGCCAGGCTAGGGGAGGCCCTGTATGGGTTGGGGAGCCTCATCATCCAGCTGTCCCACTCCAGTTCACTGCCCCTACCTACCTGCCCATCCTCTCTTGCTTTCTGCCCTCCTGACCCTATACTCCCATCCCCCTATCCCCAG
Seq C2 exon
GATGACAGAGATTGTGAGCCGTGTGTCGAAGCGAAAGCTGGGCCGCCACGTGCGGGCGCTGGTGCTTGAGCTGTGCTGTAACGACGAGAGCGGCGAGGATGTCGAGGTTCCCTATGTCCGATACACCATCCGCTGACCCCGTCTGCTCCTCTAGGCTGGCCCCTTGTCCACCCCTCTCCACACCCCTTCCAGCCCAGGGTTCCCATTTGGCTTCTGGCAGTGGCCCAACTAGCCAAGTCTGGTGTTCCCTCATCATCCCCCTACCTGAACCCCTCTTGCCACTGCCTTCTACCTTGTTTGAAACCTGAATCCTAATAAAGAATTAATAACTCCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000130985-UBA1:NM_003334:25
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF093585=UBA_e1_C=FE(25.0=100)
A:
NA
C2:
PF093585=UBA_e1_C=PD(29.5=84.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAGCTCAAGGAACGGTTGGA
R:
CTGCCAGAAGCCAAATGGGAA
Band lengths:
247-403
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)