HsaINT0161425 @ hg38
Intron Retention
Gene
ENSG00000116266 | STXBP3
Description
syntaxin binding protein 3 [Source:HGNC Symbol;Acc:HGNC:11446]
Coordinates
chr1:108796234-108796726:+
Coord C1 exon
chr1:108796234-108796372
Coord A exon
chr1:108796373-108796619
Coord C2 exon
chr1:108796620-108796726
Length
247 bp
Sequences
Splice sites
5' ss Seq
ATGGTAATG
5' ss Score
5.46
3' ss Seq
CATATTTTTACCTATTTAAGGAA
3' ss Score
6.87
Exon sequences
Seq C1 exon
GACCTGGCACTTGGAACTGATGCAGAAGGACAGAAGGTGAAAGATTCCATGCGAGTACTCCTTCCAGTTCTACTCAACAAAAATCATGATAATTGTGATAAAATAAGAGCAATTCTACTTTATATCTTCAGTATTAATG
Seq A exon
GTAATGGAGATAATCACTTTTTAATAAGTATTTTACTATTGATCATAAAAGAATCTTTGAAAACTGAAAGATAGTTGCTGAACTTGGTTAAGATAAAAGGGAAAATATGAAATCGAGAGAAGACTGAAGGAGATATAATTTGACTGTTTTTTATTTTAAAAGCTTCATTCATGGGTACTACCTAAAGCCTTGAAATTATTTTGGTAGCAATTGTGTGATTGTGCACTCATATTTTTACCTATTTAAG
Seq C2 exon
GAACTACGGAAGAAAATTTGGACAGGTTGATCCAGAATGTAAAGATAGAAAATGAGAGTGACATGATTCGTAACTGGAGTTACCTTGGTGTTCCCATTGTTCCCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000116266:ENST00000370008:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.028 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0099518=Sec1=FE(10.0=100)
A:
NA
C2:
PF0099518=Sec1=FE(6.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCACTTGGAACTGATGCAGA
R:
TGGGAACACCAAGGTAACTCCA
Band lengths:
230-477
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains