MmuINT0139175 @ mm9
Intron Retention
Gene
ENSMUSG00000035236 | Scai
Description
suppressor of cancer cell invasion [Source:MGI Symbol;Acc:MGI:2443716]
Coordinates
chr2:38962728-38963923:-
Coord C1 exon
chr2:38963827-38963923
Coord A exon
chr2:38962827-38963826
Coord C2 exon
chr2:38962728-38962826
Length
1000 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
TGTGGAATTTCTAATACCAGGAA
3' ss Score
4.85
Exon sequences
Seq C1 exon
GCCTGAGTTGGTTGTTAAGAAACTCCGATACTACGCAAGATTTATAGTAGTTTGCCTTCTTCTTAACAAAATGGACGTTGTGAAAGACCTGGTAAAG
Seq A exon
GTAAATAGTGTTTTGTTCTGTTATGGTTTGTCTTGTTTTATTTTGTTTTGTTTTGTCTTGTCTTGTCTTGTCTTGTCTTCTCTTGTTTTGTTTTGTTTTGTTTTGTTTGAAGAAGGATCTTGTTATATAACCCAGGCTGACCTTGGATTTGTAATCCCCATGAATCAGTCTCTCCTATGCTGAGATTGTAAATGTACTTTAAAATAACTGTAGCCCAACCAGATGTGACACTGCATGCTTTTAATCCCAGCACTTGGGAGGCAGAGACAGGTGGATCTCTGACCCAGGCTATCTGTAAATTCTTGTCAATCCTCCTGCCTCAATCTTGAGTGCTTACGGATATGAGTCATCAGTTCTAGCCTGATGGTATACTTCTTGATACATTTAACTCAACTATGTCCTAATTTTCACAAGCCCATTGGAAGGAGATTTATATTCTGCTATGATCGTCTATCCTTAGCTGCTAATTAGATTATTTCCAAAACACAATGTGACATAAAGGAGTAGTTTTTGTGTGTTAACGTTTATGAGTTTGTTTCTCAGGCAATTCTGTTGATAAGTTAATTGCCAATATAACACCAAGTAGGGAATAGGCTTTTATAAGGTTTTTATTTGTGGTGTATCATTCTAATTTTTTTTTTGAAGCAAATCTGTGGTTTTCATTCTTTGTTTTCTGTTATAATTTGGATTGGATATTGATACTGATCAAACATAATTCCATTACTTTCTGTCAGGAGTATTACAATATAGCTGGTTTTTATGAAGATTATAATTTTTTATATTCATGTATTTATTGTATGTGTGTGTAATTCATGCACAGGTGTCAGGACCAGAAGATAACATATAGGAATTGATTCTCTCCCTTTGCTATTTGGGTTTCATAGATTGAACTTAGGTTGTCAGGCTAGGTGGTAGATACATTTACCTGCTGAGCCATCTTGCTAGCCTTATTATGAATGTTATTAATAGACTATTTTCTTTGTGGAATTTCTAATACCAG
Seq C2 exon
GAATTGTCTGATGAAATTGAAGATTATACTCATCGCTTTAATACTGAAGATCAAGTCGAGTGGAACCTGGTGCTTCAAGAGGTAGCAGCATTCATTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035236-Scai:NM_178778:7
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:
PF120703=DUF3550=FE(6.5=100)
A:
NA
C2:
PF120703=DUF3550=FE(6.5=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:
GCCTGAGTTGGTTGTTAAGAAACT
R:
GAATGCTGCTACCTCTTGAAGCA
Band lengths:
190-1190
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: