MmuINT0142278 @ mm9
Intron Retention
Gene
ENSMUSG00000000632 | Sez6
Description
seizure related gene 6 [Source:MGI Symbol;Acc:MGI:104745]
Coordinates
chr11:77787285-77787831:+
Coord C1 exon
chr11:77787285-77787479
Coord A exon
chr11:77787480-77787692
Coord C2 exon
chr11:77787693-77787831
Length
213 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGC
5' ss Score
5.66
3' ss Seq
CGGGCTCCCCTTCCTTGCAGCCG
3' ss Score
10.63
Exon sequences
Seq C1 exon
CCTTCCAGCAAGGACATTGCTATGAGCCCTTTGTCAAATACGGCAACTTCAGCAGCAGTGCACCGTCCTACCCTGTGGGTACAACTGTGGAGTTCAGCTGTGACCCTGGCTACACCCTGGAGCAGGGCTCCATCATCATCGAATGCGTCGACCTCCACGACCCCCAGTGGAATGAGACAGAGCCAGCCTGCCGAG
Seq A exon
GTCAGCAGGCACCAGTGGGTGGGTCTGCTAGGGCAACAAGCAGGGTAGGTCCCTAGTGGCCAGCCAGGGCCACAGCTCAGTGTGATTGATATTTCTCCTAGAGGGAGGAGGTGGGGTCCCCCAGCAGTGGGTGGGGTACTTCTGTGGGCAGGTGAAAGCCCTAGGACACCATATTGGAGAGGATGCGCCTTCCCGGGCTCCCCTTCCTTGCAG
Seq C2 exon
CCGTGTGCAGCGGGGAGATCACAGACTCTGCAGGCGTGGTGCTCTCTCCAAACTGGCCGGAGCCTTATGGCCGAGGGCAGGACTGCATCTGGGGTGTGCATGTGGAGGAGGACAAGCGCATCATGCTGGACATCCGAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000632-Sez6:NM_021286:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.042 A=NA C2=0.016
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=87.9)
A:
NA
C2:
PF0043115=CUB=PU(40.7=93.6)
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:
AATACGGCAACTTCAGCAGCA
R:
CTCGGATGTCCAGCATGATGC
Band lengths:
297-510
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: