HsaINT0160250 @ hg38
Intron Retention
Gene
ENSG00000136738 | STAM
Description
signal transducing adaptor molecule [Source:HGNC Symbol;Acc:HGNC:11357]
Coordinates
chr10:17684675-17684927:+
Coord C1 exon
chr10:17684675-17684750
Coord A exon
chr10:17684751-17684831
Coord C2 exon
chr10:17684832-17684927
Length
81 bp
Sequences
Splice sites
5' ss Seq
ACTGTGAGT
5' ss Score
7.94
3' ss Seq
TTCTGATTTTGTGCTTTTAGCTT
3' ss Score
7.85
Exon sequences
Seq C1 exon
ACCTAAGGATTGTCTTCGGTCTATTATGAGAAGAGTGAACCACAAAGATCCTCACGTTGCTATGCAGGCTTTGACT
Seq A exon
GTGAGTGGTTTCATTTTAATCTGTACCACGAAATTACCTGCCACAATTGAGCCCCTTTAACTTCTGATTTTGTGCTTTTAG
Seq C2 exon
CTTCTAGGAGCATGTGTATCAAACTGTGGCAAAATTTTTCATTTAGAAGTATGTTCAAGAGATTTTGCTAGTGAAGTAAGCAACGTATTAAATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136738:ENST00000377524:3
Average complexity
IR
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:
PF0079014=VHS=FE(18.5=100)
A:
NA
C2:
PF0079014=VHS=FE(23.0=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:
ACCTAAGGATTGTCTTCGGTCT
R:
TTAATACGTTGCTTACTTCACTAGCA
Band lengths:
167-248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains