MmuINT0142279 @ mm10
Intron Retention
Gene
ENSMUSG00000000632 | Sez6
Description
seizure related gene 6 [Source:MGI Symbol;Acc:MGI:104745]
Coordinates
chr11:77974191-77974636:+
Coord C1 exon
chr11:77974191-77974329
Coord A exon
chr11:77974330-77974439
Coord C2 exon
chr11:77974440-77974636
Length
110 bp
Sequences
Splice sites
5' ss Seq
AGTGTGAGT
5' ss Score
6.96
3' ss Seq
CTGATCTTCCTCCTCTACAGGCT
3' ss Score
10.2
Exon sequences
Seq C1 exon
CCGTGTGCAGCGGGGAGATCACAGACTCTGCAGGCGTGGTGCTCTCTCCAAACTGGCCGGAGCCTTATGGCCGAGGGCAGGACTGCATCTGGGGTGTGCATGTGGAGGAGGACAAGCGCATCATGCTGGACATCCGAGT
Seq A exon
GTGAGTGACTCGGGTCAGGCAAGCCGGCTCCTGAGACTGGGGACACCTCTAGTCCCGCCCACCTCGACCCCTCCCCCAGCCCCTCCCGCTCTGATCTTCCTCCTCTACAG
Seq C2 exon
GCTGCGCATAGGCTCTGGGGATGTACTGACCTTCTACGATGGGGATGACCTCACAGCCCGGGTCCTGGGCCAATACTCAGGGCCCCGTGGCCACTTCAAGCTCTTTACCTCCATGGCCGATGTCACCATCCAGTTCCAGTCAGACCCTGGGACCTCGGCGCTGGGTTACCAGCAAGGATTTGTCATCCACTTCTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000632:ENSMUST00000093995:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.013 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043115=CUB=PU(40.7=93.6)
A:
NA
C2:
PF0043115=CUB=PD(58.3=94.0)
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:
GTGGTGCTCTCTCCAAACTGG
R:
CAGGGTCTGACTGGAACTGGA
Band lengths:
253-363
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