MmuINT0153606 @ mm10
Intron Retention
Gene
ENSMUSG00000055371 | Stam2
Description
signal transducing adaptor molecule (SH3 domain and ITAM motif) 2 [Source:MGI Symbol;Acc:MGI:1929100]
Coordinates
chr2:52719697-52719977:-
Coord C1 exon
chr2:52719902-52719977
Coord A exon
chr2:52719796-52719901
Coord C2 exon
chr2:52719697-52719795
Length
106 bp
Sequences
Splice sites
5' ss Seq
ACCGTGAGT
5' ss Score
9.4
3' ss Seq
GTTTTTATCTTAATTGCTAGCTT
3' ss Score
5.28
Exon sequences
Seq C1 exon
AGCAAAAGATTGCCTAAAAGCCATAATGAAAAGGGTAAACCATAAGGTCCCTCACGTTGCTCTGCAGGCATTGACC
Seq A exon
GTGAGTAAACGACATGTCAGATGACCCTGTTAAAATGCACTCATTCAGCGACTTAAGCCACAGAGCATTTTGATGTTTATATATCTGTTTTTATCTTAATTGCTAG
Seq C2 exon
CTTCTTGGAGCTTGTGTGGCAAACTGTGGAAAGATATTTCATTTAGAAGTATGTTCCCGTGATTTTGCAACGGAAGTACGTTCTGTGATAAAAAATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000055371:ENSMUST00000102759:3
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(37.3=100),PF0079014=VHS=PU(0.1=0.0)
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:
AAGATTGCCTAAAAGCCATAATGAA
R:
TTATCACAGAACGTACTTCCGT
Band lengths:
162-268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types