MmuINT0045980 @ mm10
Intron Retention
Gene
ENSMUSG00000039660 | Spout1
Description
SPOUT domain containing methyltransferase 1 [Source:MGI Symbol;Acc:MGI:106544]
Coordinates
chr2:30176362-30176664:-
Coord C1 exon
chr2:30176615-30176664
Coord A exon
chr2:30176493-30176614
Coord C2 exon
chr2:30176362-30176492
Length
122 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAG
5' ss Score
8.68
3' ss Seq
ACCTCCTGTTCCCTGCCCAGGAA
3' ss Score
10.1
Exon sequences
Seq C1 exon
GTACCTGAGAAAGGCGTTCTTCCCCAAGCACCAAGATCTGCAGTTTGCAG
Seq A exon
GTACAGCTAGTGTGCCTGCCCCATTTCCCATGACTCAGCCTTAGGCACCAAGATGGATCCAGGTGGGAACACAGGCTAGGGGTAGAGCCTGGTCCTATCATCACCTCCTGTTCCCTGCCCAG
Seq C2 exon
GAATCCTCAACCCCTTGGACAGCCCTCACCACATGCGTCAGGACGAAGAGTCTGAGTTTCGAGAAGGCGTCGTGGTGGACCGGCCCACCAAGGCAGGCCATGGCTCTTTGGTCAACTGTGGAATGAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039660:ENSMUST00000100220:6
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=0.409
Domain overlap (PFAM):
C1:
PF0259812=Methyltrn_RNA_3=FE(5.8=100)
A:
NA
C2:
PF0259812=Methyltrn_RNA_3=FE(14.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAAAGGCGTTCTTCCCCAAG
R:
TCTTCATTCCACAGTTGACCA
Band lengths:
172-294
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