MmuINT0153593 @ mm9
Intron Retention
Gene
ENSMUSG00000026718 | Stam
Description
signal transducing adaptor molecule (SH3 domain and ITAM motif) 1 [Source:MGI Symbol;Acc:MGI:1329014]
Coordinates
chr2:14037444-14037700:+
Coord C1 exon
chr2:14037444-14037519
Coord A exon
chr2:14037520-14037604
Coord C2 exon
chr2:14037605-14037700
Length
85 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
3' ss Seq
TCCTCACTCTATCCTTGCAGCTT
3' ss Score
10.08
Exon sequences
Seq C1 exon
ACCTAAAGATTGTCTTCGTTCCATTATGAGAAGAGTGAACCATAAAGACCCCCATGTTGCTATGCAAGCCTTAACT
Seq A exon
GTAAGTAGCTTCGTTTTCAGTAAGCAGCACTACTTGATTAGCTCTCAGCATTGAACCTTTTTAATTCCTCACTCTATCCTTGCAG
Seq C2 exon
CTTCTGGGAGCATGTGTATCAAACTGTGGCAAAATTTTTCACTTAGAAGTATGTTCAAGAGACTTTGCTAGTGAAGTAAGCAATGTATTAAATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026718-Stam:NM_011484:3
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:
PF0079014=VHS=FE(18.5=100),PF136461=HEAT_2=FE(22.5=100)
A:
NA
C2:
PF0079014=VHS=FE(23.0=100),PF136461=HEAT_2=FE(27.9=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:
ACCTAAAGATTGTCTTCGTTCCA
R:
TTGCTTACTTCACTAGCAAAGTCTCT
Band lengths:
159-244
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: