HsaINT0176008 @ hg19
Intron Retention
Gene
ENSG00000130985 | UBA1
Description
ubiquitin-like modifier activating enzyme 1 [Source:HGNC Symbol;Acc:12469]
Coordinates
chrX:47072389-47073827:+
Coord C1 exon
chrX:47072389-47072580
Coord A exon
chrX:47072581-47073725
Coord C2 exon
chrX:47073726-47073827
Length
1145 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGG
5' ss Score
6.92
3' ss Seq
CTCCCCTCTTTGTCTTGCAGTAC
3' ss Score
10.45
Exon sequences
Seq C1 exon
AGCAAGCTGATTGCAGGGAAGATCATCCCAGCCATTGCCACGACCACAGCAGCCGTGGTTGGCCTTGTGTGTCTGGAGCTGTACAAGGTTGTGCAGGGGCACCGACAGCTTGACTCCTACAAGAATGGTTTCCTCAACTTGGCCCTGCCTTTCTTTGGTTTCTCTGAACCCCTTGCCGCACCACGTCACCAG
Seq A exon
GTGGGGGCCTGCATCCGAAGCAGGGTTTGGGTGGGGTGTATCTGTGTAGATCTGGTTCTGATTCACGTCATACCCTGTCACCAGGTGAGGGTTTCTGTCTGTGTACCTACCCTTTTTGTGTATCCTTTTTCACTTATTCATTAATCACATTATTTGAGTACGTGCGAAAAGATGGGATATTTGAATTGTGCCCTGGGAGATTATTAGTAACTACACAATAATGGCAGCCAAAATTTATTGGACGCTTCCTACACTTAAGTGCTTTGCTTGCTTCATTAATGAATTCACTCAAATATTTATTGAGCACCTTTTGTGTGCAGGGACTCTTCTAAGTTATGTTCCTCAAGTAGATTATATAAATAACCTATTAAATGATTTTGGAATCAAAAAAGGATAAAAAGAGGCCGGGCGTGGTGGCTTACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCACGTGGTTCACCTGAAGTCAGGAGTTTGAGACCAGCCTGGCCAACATGATGAAACCCTGTCTCTACTAAAAATACAAAAAATTAGCCAGGCGTAGTGGTAGGCACCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAAGAGAATCACTTGAACCCGGGAGGCGGAGGTTGCAGTGAGCCAAGATGGCGCCATTGCACTCCCGCCTGGGTGACAGAGCGAGACTGCATCTCAAAAAAAAAAAAAGATAAAGAGGACTTGAGAATACCAGGGGGCGAGGGGATGTATTTGAGATTTTGTGTAGGATGGTCAGAAAAGGCCTTGCTGAAAAGATGACATTTGAGATCAGACTTGGAGGATGTAAGGGGACAAACTGTGCAGGCTTGGTGGCGAGTGGGGACACATTCCAGGCAGAGGGACCAGTTCTTGAAAGGGTACCAAGATAGGGGTGTGCCTGGCAAGTTGGAGGAATTCAAAGTCCCCAGAGTGAGTGTGAGATTGAGGAGGGTAGGAGATGAGAAGAAAACAGAATTTCATTGCTTAGGGTGAGATAGGAACCACAAGAGGATTTCGAACAAAAGAGGGTTGTGATCTGACTAAACACGTCTGCATGGGGGTAGGGGGGATGGAGACAGATGGGGGCTGGACCCTCTGGGATGGTCTCCATCTTACACTCCCCTCTTTGTCTTGCAG
Seq C2 exon
TACTATAACCAAGAGTGGACATTGTGGGATCGCTTTGAGGTACAAGGGCTGCAGCCTAATGGTGAGGAGATGACCCTCAAACAGTTCCTCGACTATTTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000130985-UBA1:NM_003334:23
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0213416=UBACT=PD(47.8=51.6),PF093585=UBA_e1_C=PU(18.2=37.5)
A:
NA
C2:
PF093585=UBA_e1_C=FE(25.0=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:
CAAGCTGATTGCAGGGAAGATCA
R:
ATAGTCGAGGAACTGTTTGAGGG
Band lengths:
286-1431
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)