MmuINT0142272 @ mm9
Intron Retention
Gene
ENSMUSG00000000632 | Sez6
Description
seizure related gene 6 [Source:MGI Symbol;Acc:MGI:104745]
Coordinates
chr11:77766910-77768385:+
Coord C1 exon
chr11:77766910-77767569
Coord A exon
chr11:77767570-77768251
Coord C2 exon
chr11:77768252-77768385
Length
682 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGC
5' ss Score
7.16
3' ss Seq
TGTCTCCTCCTGCCTCCCAGGCC
3' ss Score
9.75
Exon sequences
Seq C1 exon
GACTCTCCTCAGAGGCTCCGATCACGGGGGAAGGTCATGCCACGGGCATCAGGGAGACGGATGGGGAGCTGACCGCAGCCCCTACACCTGAGCAGTCAGACCGAGGCGTCCACTTCGTCACCACAGCCCCTACCCTCAAGCTGCTCAACCACCACCCACTTCTGGAAGAATTTCTTCAAGAGGGGCTAGAAAGAGAGGAAGCGCCGCAGCCTGCACTGCCCTTCCAGCCGGACTCACCTACACACTTTACTCCAAGCCCCCTCCCCCGCCTCACCAACCAGGACAACCGCCCCGTCTTTACCAGTCCGACTCCAGCCGTGGCTGCAGCACCCACCCAGCCCCACTCCAGGGAGAAACCTTGGAACCTAGAATCCAAACCCCCTGAGCTTTCTATCACATCGTCCCTTCCTCCAGGGCCGAGTATGGCAGTGCCCACACTGCTCCCAGAGGACAGACCCAGTACTACACCCCCTAGCCAAGCATGGACTCCAACTCAGGAGGGTCCTGGAGACATGGACAGACCTTGGGTTCCAGAGGTCATGTCTAAGACCACAGGGCTTGGTGTCGAGGGAACCATTGCCACCTCCACAGCTTCAGGGGATGACGAAGAGACCACTACCACCATCATTACCACTACTGTCACCACAGTTCAGCCACCAG
Seq A exon
GTCAGCTACCTGCTGGCTGGCAGGGCTGAAAGTGAGGGAGGAGGGCACACCACGATCCCTAAATGCCTCTGTTTTCTGACACTACACCAACCTGCCGGACCTTTTGCAACCAAGGGTCAGCCTGTCTAAAGCGTGTGGATTGGAATCAGATAACCCCAAGTTCAAGTTCTGATTCTTCCAACTGTAACACAGCCCTCTGGGGTTTTAGTCAGCCTCTCTGAGCCTCAAGTACAAAGTAGTGATCAGAAACCCTGGGGCTGGAGAGATGGCTTCGCAGTTAAGAATACTTGCTGCTCTTGCAGGGAACCTGGGTTCCTAGCACTGGCATGGCCACTAACAGCCATCTGTAACTCTAGTTCCAGTGGATCTAATGCCCTCTTCTGGCCTCAGTGGGCACTAGGCACAAAGGTAGTGCACATACATCCATGCAGGCAAAACACTCATCACACACACACACACACACACACACACACACACACACCAAATGAACCATTGTGAGAAATGAAATAGGGATGCATGGTAGCCCTAAGGTGGTCCCATTTTTTCAACAAAGAAATAAACATTCCTAAAGGTCAGCTTCAATAGGCATGCACACAGAGAGAGAGCTTATTTCAGCTATAGCTGAATCTTCATCTACCCCACCAGAGCTGGTCTTAGCCTCATGTCTCCTCCTGCCTCCCAG
Seq C2 exon
GCCCCTGTAGCTGGAATTTCTCAGGCCCAGAGGGCTCTCTGGATTCCCCCACGGCCCCCAGCTCACCCTCTGATGTTGGCCTGGACTGTTTCTACTATATCTCTGTCTACCCTGGATATGGAGTAGAGATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000632-Sez6:NM_021286:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.946 A=NA C2=0.471
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0043115=CUB=PU(44.7=93.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCACATCGTCCCTTCCTCCAG
R:
CAACATCAGAGGGTGAGCTGG
Band lengths:
345-1027
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: