MmuINT0153608 @ mm9
Intron Retention
Gene
ENSMUSG00000055371 | Stam2
Description
signal transducing adaptor molecule (SH3 domain and ITAM motif) 2 [Source:MGI Symbol;Acc:MGI:1929100]
Coordinates
chr2:52574722-52575605:-
Coord C1 exon
chr2:52575459-52575605
Coord A exon
chr2:52574792-52575458
Coord C2 exon
chr2:52574722-52574791
Length
667 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TTTTATTCATACGCTTACAGACT
3' ss Score
6.61
Exon sequences
Seq C1 exon
GCTCATCCTAAAGTATGTGAAAAACTAAAATCTCTAATGGTGGAATGGTCAGAAGAATTCCAGAAGGACCCCCAATTTAGTCTGATATCTGCAACTATTAAGTCTATGAAAGAAGAAGGGGTTACTTTTCCTTCCGCAGGCTCCCAG
Seq A exon
GTGAGAGGTTTATTCAGACCATGGCTGAAGGTACTTATACAAGAGCTAGCAAGGGATAGGAGTTTTGTTTACTTGTACTCATGTGTGTGCGTGTGTTTGTGTACATGTGTGTGCAACCTTCTAATAAGTAATAAAGAGCAGCCTATCTGTCATTTCTGCTTGCCATTCTCAGAAATGAGTGTTAAAGGACTGTTGATGGCTCAGAGCTCTGCATACCTGTCCAAGGGCCATCAAACTGCAGAGGGTCTTGCTGTAGTGAGCAGCCAAGGACTTGAGGTGTACCCCAGGAGATGTGCTTTCTTTCTGTCTGAGCTCTGAGCCAGTAGCTTGTGAGTGCCTCTTCTGCATAAAAGACCTTCAGCAGCGGAGACTCAAGTTCTGTTCATTCTGTAAAAATTGCATTTCTTTCTTTATGCCAAGTTCTATGTCAGATACTTAGATTTATGTAAAATATTAGTCAGCGTGTACCTTTCATGTGTTTATGTTTTCTTGAAAACTGTTGTTTAGTGTTAGTATTTCAGAACAGCTACTTAAATGATCATGAAGAACCTCACTTTTTAAATGGAGTTGAGTTAGCAGTATTTTTTAATTAGCATCTACATATAATTATACAGCTTGTGCTTCCTTTGAAAGAATAGTTGTGCTCATTTTATTCATACGCTTACAG
Seq C2 exon
ACTGTCGCGGCTGCTGCCAAAAACGGGACATCATTGAACAAAAACAAAGAAGATGAGGACATAGCTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000055371-Stam2:NM_019667:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.051 A=NA C2=0.667
Domain overlap (PFAM):
C1:
PF0079014=VHS=PD(3.0=4.1),PF0079014=VHS=PD(95.1=79.6)
A:
NA
C2:
PF0280915=UIM=PU(50.0=37.5)
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:
GCTCATCCTAAAGTATGTGAAAAACT
R:
TAGCTATGTCCTCATCTTCTTTGT
Band lengths:
214-881
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: