MmuINT0142310 @ mm9
Intron Retention
Gene
ENSMUSG00000030683 | Sez6l2
Description
seizure related 6 homolog like 2 [Source:MGI Symbol;Acc:MGI:2385295]
Coordinates
chr7:134102561-134103468:+
Coord C1 exon
chr7:134102561-134102729
Coord A exon
chr7:134102730-134103304
Coord C2 exon
chr7:134103305-134103468
Length
575 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGA
5' ss Score
8.72
3' ss Seq
CACCCTTCTGTCCATCCCAGGCT
3' ss Score
8.91
Exon sequences
Seq C1 exon
CATCTTGTGGTGGCACCATCCACAATGCCACACTGGGTCGCATTGTATCCCCTGAGCCTGGGGGAGCTGCAGGGCCCAACCTCACCTGCCGCTGGGTCATTGAAGCGGCCGAGGGACGCCGGCTTCACCTACACTTTGAGAGAGTCTCACTGGATGAGGACAATGACCG
Seq A exon
GTGAGAATCTCTGGGCTTTGGGTCAGAGGTCCCCACCTTGGGAAAGCTGAGAGGCTTCAGGGGAGAGTCAGATACATTGGATGAGGTTTCAACCTGAGTTTTGTCCTAATCGTCTCAGACAGTGCGGCTGTGCAAACCTTAGATGCCTCAGTGTGCCTGGAAGCGTCTCATTTCTCACTGGTGGGACAGAGCATCCTTCCAAATGCTTACTTAATAAAAGCATTAAGATATGTAAAGTAGTAGGAGTGGTCCCTAGGACGTGATAAACACTATAAAAGTATGTGCTGTCATTTTTCCATTCTTCTTTGTTGCTTTGTAGTGTGCTCTCAGGCTGAGCATCCAGTCTTTCTGTGCCTCTGTATCCTCACCTATAAAATGAGGGGTTAATAATAGTGTCTGACTCAAGAGTCCTTGTGAAGATCAAACAAGATCAAATATGTTGGGGCTTAAAAGAATGCATGGTATGAGTTAGTATTTGATAATAGCAGTTGTCAAGATAAGCCAGGAGAGCAGGCAGGGAGGCAGCTTCCTGGGGGGGGGGGGGAATGCACCTGCCACCCTTCTGTCCATCCCAG
Seq C2 exon
GCTGATGGTGCGCTCAGGGGGAAGCCCCCTGTCCCCTGTGATTTACGACTCTGACATGGATGATGTCCCTGAACGCGGTCTCATCAGTGATGCCCAGTCCCTCTACGTAGAACTGCTTTCAGAGACACCAGCCAACCCCCTGCTGCTCAGCCTCCGATTTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030683-Sez6l2:NM_144926:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.140 A=NA C2=0.170
Domain overlap (PFAM):
C1:
PF0043115=CUB=PU(56.2=94.7)
A:
NA
C2:
PF0043115=CUB=PD(42.7=73.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCATCCACAATGCCACACTG
R:
TTCAAATCGGAGGCTGAGCAG
Band lengths:
318-893
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: