HsaINT0176013 @ hg19
Intron Retention
Gene
ENSG00000130985 | UBA1
Description
ubiquitin-like modifier activating enzyme 1 [Source:HGNC Symbol;Acc:12469]
Coordinates
chrX:47058879-47060399:+
Coord C1 exon
chrX:47058879-47059013
Coord A exon
chrX:47059014-47060292
Coord C2 exon
chrX:47060293-47060399
Length
1279 bp
Sequences
Splice sites
5' ss Seq
CAGGTATCT
5' ss Score
7.33
3' ss Seq
GAGCCTCCATCTCTCCACAGGTG
3' ss Score
11.17
Exon sequences
Seq C1 exon
TTCTACCTGCGGGAGGAGGACATCGGTAAAAACCGGGCCGAGGTATCACAGCCCCGCCTCGCTGAGCTCAACAGCTATGTGCCTGTCACTGCCTACACTGGACCCCTCGTTGAGGACTTCCTTAGTGGTTTCCAG
Seq A exon
GTATCTTGGGGGTACTACCCAGCCTTCTGCCCAGTTTTCTCAGAGCCCATCTCTGGTTTATTCAGTAGTGTTCAATATTGATTTAATGGGTCGGCCTGAATGTCAGGTTTTGTGCTGGGGGACTAGAGTATGCAGGCAGCAGTTAGCCCCTGGCCCTGCCTTTTCTTTTCTTCTTTTTTTTTTTTTGAGACGGAGTCTTGCTCTGTCGCCCAAGCTAGAGTGCAGTGGCGCGATCTCGGCTCACTGCAAGCTACACCTCCTGGGTTCACGCCATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGACTACAGGCGCCTGCCACCACGCCCGGCTAATTTTTTTTTGTATTTTTAGTAGAGACGGGGTTTCACTGTGTTAGCCAGGGTGGTCTCGATCTCCTGACCTTGTGATCCGCCCGCCTCCGCCTCCCAAAGTGCTGGGATTACAGGTGTGAGCCACCGCACCCGGCCTGGCCCCGCCTTTTCAAGTGGGGAAGATGTGTACAGACAGTACAGCATAGTGGTTGTGGGCACAGACTGTAGAGCCATACTGCCTTGCTGCAGGCCTCCAGCCTTGGTAGTGTGACTTCAAGCAGGTTGTTTCATCTCCTGTACCTTTGTTTTCCTGTTTGTAGTCAGTGCGTGGTAGCAGCACTGACTTCATGGACTTTTTGTGAGGGTTAAACACGTGGAATTGCAGCTGGCATATAAGGACTGGATGGGTGTTTGTTAATTAAAAAGTCCAGGCCGGAAAGAGGTGCTCTGGAAGCTGAGAGTTGTCCCTGGAGTATCCCAGGTTGCCAGGGCACTGCAGCTAAATCCTGATGGAGGAGTAGGAGCTCACCCTGGTGGGGAAGGATGGACATTCAGGCAGAGAGCAAAATCCCAAAGATCATGGCGGAGCAGGCGTCGTCTTGAGAATTGGAAGCAGGTGGGTGTGGTAGGAGTGAGCTCAGACTTTGGCTGGAGACAGAGTTTTACTCCAGTGTCTCACAGGGCATGGCAGACAGACAGCAGCGGGTGTTTGTCAAATAAATGAGTCAGCTCTTCTCCAAACTCCCTCCTCCCAGCTACCTCTTCACCTTTCCTGGTATAGTCCAGGGGTTCATTTTCGACCCCCACAGAGTCTGATACACAGTAGGTGCTATGTGTTTGTGAAAGAGGCTGACCCAGCAAAGCCTGGATGTGTTTGCCTTGAGGACTGCCTGAGTCCTCCACACCAGCCCTCCATTTTTTCCCCTTCACCCCAATGCTGGGCCTGAGCCTCCATCTCTCCACAG
Seq C2 exon
GTGGTGGTGCTCACCAACACCCCCCTGGAGGACCAGCTGCGAGTGGGTGAGTTCTGTCACAACCGTGGCATCAAGCTGGTGGTGGCAGACACGCGGGGCCTGTTTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000130985-UBA1:NM_003334:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.045 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0089916=ThiF=PD(48.3=95.6)
A:
NA
C2:
PF0089916=ThiF=FE(26.5=100)
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:
CTGCGGGAGGAGGACATCG
R:
CGTGTCTGCCACCACCAG
Band lengths:
222-1501
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)