MmuINT0153594 @ mm10
Intron Retention
Gene
ENSMUSG00000026718 | Stam
Description
signal transducing adaptor molecule (SH3 domain and ITAM motif) 1 [Source:MGI Symbol;Acc:MGI:1329014]
Coordinates
chr2:14115978-14117535:+
Coord C1 exon
chr2:14115978-14116073
Coord A exon
chr2:14116074-14117388
Coord C2 exon
chr2:14117389-14117535
Length
1315 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
TTTTCTTTCTTGTTCCTTAGGGT
3' ss Score
12.69
Exon sequences
Seq C1 exon
CTTCTGGGAGCATGTGTATCAAACTGTGGCAAAATTTTTCACTTAGAAGTATGTTCAAGAGACTTTGCTAGTGAAGTAAGCAATGTATTAAATAAG
Seq A exon
GTAAGGAGCATCATGTCTAGAAGTCAAGAAGTCGTCTTTCTTTGTGTTTTTTATTGCTACGTTCTTCCCATTTCAAATTCCAAAGAACGTTTGTGTATGTGTGTGTTTCCTAGACTGTAAGAACTGCGTTTCCTTGAAAAGACTACAGATCCACATGAACTTCTTTGGGGGGGGGGGGGTAGTTCTTCTGCAGGCCACACAGTAGTAGGTTTAGGATTTTTCTGTGTTTTCATTTGATATGAAAAGATACATTCCGGGTTACCCGAAGATATTTTATAGTATTTGTGGCTATTGTGAAGGGAGTTATTTCCCTGTTTTTTTTCCTCAGCCTGTTTATCATTTGTATGAAGAAAGGCTAATGATTTGTTTGAGTTAATTTTATATCCAGCAACTTTGCTGAAGTTATCAGCTGTAGAAGTTCTCTGGTAGAATTTTGGGGGTTGTTTATGTATGTATACTATCATATCATTTGCAAATAATGATACCTTGACTTTTTCTTTGCTAATTTGTATCCCCTTGATCTCATTTTGTTGTCTTAATTGCTCTAGCTAAATCTTCAGGTACTATATTGAGTGGATATCGGGAGAATGGGCAGCCTTGTCTTGTTCCTGACTTTAATGGAATTGCTTCAAGTAGCTCTCTATTATTTAATGTAATGAAATACCAGTGTACTTCTAGGTCCTTTTTTTGGTACCATTTTTGTACCCATGAAAGCATTTCCCTAATGTAGAATCCTTCAGAGGAAACTGCTAGAATTTAATGTCCTATTAAGTCTTCATCTTATGTAACCAGGGATACTACATGACTGGCTGTCCTACTGTATTACTACTATGTTGGGCCAGATCTTTAGAAGGAGTTGCCCCTAATATTGTGGCAAAGAAGTTCTTACTGGGAACTGCCCCCAAGCCAAGACTGGGCTGGTTGTGATTCTAAACTAAGAAGCACTCAGTTTCAGGAATATCAGCTTATGCTAGCAGTTGTTAGTGGTTTATATTCGCCTTGCAGTTTTTAAAAAATATCAATGGCAATGGAATACAAATAGCAATGGAAATATGTAATTTTTCTTTGTTGTCCTGCTGTATATAATTACACTGAAAAATCCCATCATTCTGATTTCTGGAGTAAGTTATTACACATTTAATGTACCTGTTAAATGAGATGTAGGCAATAATACGTTTCTTTTTTTATGGTAAGAAAGTTAATGTTAATTACTTTATAGATGTTGGTTTTTTTCCACATATATAGTCTATTGTAGTAGAAAATTAACTGTACCATAAAACTTGTGCTTTATCATTTTTTCTTTCTTGTTCCTTAG
Seq C2 exon
GGTCATCCTAAAGTATGTGAAAAATTAAAGGCTCTTATGGTTGAATGGACAGATGAATTTAAGAATGATCCACAGCTTAGTCTGATATCGGCAATGATCAAGAACCTTAAGGAACAAGGTGTAACATTCCCAGCTATTGGCTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026718:ENSMUST00000102960:4
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=0.017
Domain overlap (PFAM):
C1:
PF0079014=VHS=FE(23.3=100),PF136461=HEAT_2=FE(25.0=100)
A:
NA
C2:
PF0079014=VHS=PD(29.3=79.6),PF136461=HEAT_2=PD(29.0=73.5)
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:
GAGCATGTGTATCAAACTGTGGC
R:
GCCAATAGCTGGGAATGTTACAC
Band lengths:
230-1545
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