MmuINT0142267 @ mm9
Intron Retention
Gene
ENSMUSG00000000632 | Sez6
Description
seizure related gene 6 [Source:MGI Symbol;Acc:MGI:104745]
Coordinates
chr11:77789974-77790443:+
Coord C1 exon
chr11:77789974-77790165
Coord A exon
chr11:77790166-77790245
Coord C2 exon
chr11:77790246-77790443
Length
80 bp
Sequences
Splice sites
5' ss Seq
TCTGTGAGT
5' ss Score
7
3' ss Seq
GCTGCCTGCCTGCCTTGCAGTGG
3' ss Score
7.63
Exon sequences
Seq C1 exon
TGACATCTTGCCATGACCCAGGGGATGTGGAGCACAGCCGACGCCTCATATCCAGCCCCAAGTTTCCCGTGGGAGCAACTGTGCAATATGTCTGTGACCAGGGTTTTGTGCTGACGGGGAGTGCCATTCTCACCTGCCATGATCGGCAAGCAGGCAGTCCCAAGTGGAGTGACAGGGCCCCCAAGTGTCTCT
Seq A exon
GTGAGTGTACAGTGGGCAGGAGGGGAACCTCTAGTAAGATCAAAACCTGACACCTCGATTGCTGCCTGCCTGCCTTGCAG
Seq C2 exon
TGGAACAATTCAAGCCGTGCCATGGCCTCAGCGCCCCGGAGAATGGTGCCCGCAGCCCTGAGAAGCGGCTTCACCCAGCAGGGGCCACCATCCACTTCTCCTGTGCCCCTGGTTATGTGCTGAAGGGCCAGGCCAGCATCAAATGCGTGCCTGGACACCCCTCGCATTGGAGTGACCCACCACCCATCTGTAGGGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000632-Sez6:NM_021286:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.015 A=NA C2=0.164
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=92.3)
A:
NA
C2:
PF0008415=Sushi=WD(100=86.6)
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:
GCCATTCTCACCTGCCATGAT
R:
GCACAGGAGAAGTGGATGGTG
Band lengths:
176-256
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: