HsaINT0160263 @ hg19
Intron Retention
Gene
ENSG00000115145 | STAM2
Description
signal transducing adaptor molecule (SH3 domain and ITAM motif) 2 [Source:HGNC Symbol;Acc:11358]
Coordinates
chr2:153004538-153004814:-
Coord C1 exon
chr2:153004739-153004814
Coord A exon
chr2:153004637-153004738
Coord C2 exon
chr2:153004538-153004636
Length
102 bp
Sequences
Splice sites
5' ss Seq
ACTGTGAGT
5' ss Score
7.94
3' ss Seq
ATTTTTATTTCAATTAATAGCTT
3' ss Score
5.51
Exon sequences
Seq C1 exon
AGCGAAAGATTGCCTAAAAGCCATAATGAAAAGGGTAAATCATAAGGTTCCACATGTTGCTCTGCAAGCACTAACT
Seq A exon
GTGAGTACAAGGCATGTTATTATTTGACGCAAATTTTAAATGTGTTTTTAATTACAGTAAGTTAATATTTCAATATTCATATATTTTTATTTCAATTAATAG
Seq C2 exon
CTTCTTGGGGCTTGTGTGGCAAACTGTGGAAAGATATTTCATTTAGAAGTATGTTCCCGTGATTTTGCAACAGAAGTACGTGCTGTGATTAAAAATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000115145-STAM2:NM_005843:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.325 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0079014=VHS=FE(18.2=100)
A:
NA
C2:
PF0079014=VHS=FE(23.4=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:
AGCGAAAGATTGCCTAAAAGCC
R:
TTTTAATCACAGCACGTACTTCTGT
Band lengths:
170-272
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)