MmuINT0142310 @ mm10
Intron Retention
Gene
ENSMUSG00000030683 | Sez6l2
Description
seizure related 6 homolog like 2 [Source:MGI Symbol;Acc:MGI:2385295]
Coordinates
chr7:126959047-126959954:+
Coord C1 exon
chr7:126959047-126959215
Coord A exon
chr7:126959216-126959790
Coord C2 exon
chr7:126959791-126959954
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:ENSMUST00000106335:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.148 A=NA C2=0.165
Domain overlap (PFAM):
C1:
PF0043115=CUB=PU(55.7=94.7)
A:
NA
C2:
PF0043115=CUB=PD(43.3=75.0)
Other Inclusion Isoforms:
NA
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
- 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