HsaINT0179349 @ hg19
Intron Retention
Gene
ENSG00000148429 | USP6NL
Description
USP6 N-terminal like [Source:HGNC Symbol;Acc:16858]
Coordinates
chr10:11526970-11527233:-
Coord C1 exon
chr10:11527168-11527233
Coord A exon
chr10:11527070-11527167
Coord C2 exon
chr10:11526970-11527069
Length
98 bp
Sequences
Splice sites
5' ss Seq
CGTGTAAGT
5' ss Score
8.58
3' ss Seq
TGTTTTGCTTTTAATTGTAGACT
3' ss Score
8.36
Exon sequences
Seq C1 exon
GATTCTCAAGAAATCTACACAAGTTTTTACACAATGAAATGGTTTTTTCAGTGTTTCCTTGATCGT
Seq A exon
GTAAGTATTTATTTACAAAACTCAGTCATAAAATTATAAATACAAGGTGAGGGGAAGCTGTTAACCCTATTTTTGTTTTGTTTTGCTTTTAATTGTAG
Seq C2 exon
ACTCCCTTTACACTAAACCTCAGAATATGGGATATCTACATCTTTGAAGGAGAACGAGTTCTTACTGCTATGTCTTACACCATCTTAAAATTACACAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148429-USP6NL:NM_001080491:11
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:
PF0056613=RabGAP-TBC=FE(10.0=100)
A:
NA
C2:
PF0056613=RabGAP-TBC=FE(15.7=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:
CACAAGTTTTTACACAATGAAATGGT
R:
AAGATGGTGTAAGACATAGCAGT
Band lengths:
135-233
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)