MmuINT0142301 @ mm10
Intron Retention
Gene
ENSMUSG00000030683 | Sez6l2
Description
seizure related 6 homolog like 2 [Source:MGI Symbol;Acc:MGI:2385295]
Coordinates
chr7:126967014-126968044:+
Coord C1 exon
chr7:126967014-126967205
Coord A exon
chr7:126967206-126967926
Coord C2 exon
chr7:126967927-126968044
Length
721 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCCT
5' ss Score
5.39
3' ss Seq
CTATCTTCCTCCCTCCCCAGTGA
3' ss Score
10.58
Exon sequences
Seq C1 exon
TAAAGTACGAGCCGTGCCTGAACCCCGGTGTTCCTGAGAATGGTTACCAAACTCTGTACAAGCATCACTACCAAGCGGGCGAGTCGCTACGCTTCTTCTGCTACGAGGGCTTTGAGCTCATCGGCGAGGTCACCATCACATGTGTACCCGGTCACCCCTCCCAGTGGACCAGCCAGCCCCCACTCTGCAAAG
Seq A exon
GTGCCTGGGCAGACAGGGCAGGAGGGGCATAGCGGTATACGGGGAGTGACAGGGCTAGAAAAGTTGGGTAGAGAATTCGAGAACAATGGCTGACCCTGCTGAGTGCCTGTCCTGTGGGCTCTTATCCTTATAGGCATGGCTGGAAAACCTGGGGAGATCTGAGGTCCCACAATTATCAAGGAATGTAGTGAGGGCCTTGGTTTAGAGGCCCCTGCTCTCTCTACAAAGGGAGAGTTTTGCTGTCAGTGAGAAATTCTGAAGCTGCCTGGCTCAGACTGTCCAGGGACCTTGAAGCTTTAGTGGTCTGAAGGGAGAGGACAGGCCTTGACCCATCAGTCCTCACGGCCTCCACACACTCAGGGAGAGACGAGTTCAGATTGAACAGAGGGCAGAGAACCAGGCTGTGCAGCCCAGCCTCGCCCCACCGGGCTCTGGCCCTCTCCTCAGTCTCCTTCCCTCCCTGGCTCAGACCCCGTCCCCCTCCCCCTCCTCTCCCTGCAGTGGCCTATGAGGAGCTCCTGGACAACCGAAAACTGGAAGGTCAGTGAGGGTGCAGGTGGAGACCAGGCCTGGCCAGGTTGGGAGGGCAAGATCAAGGCTGGGGGTAGGAGGCCAGGCCCCGGAGGGGTGAAGCCAAGGGTTCAGGCCCCAGGGCAGGAGGCTGGGAGAGCCCAGGAATGGGGATGGCCTTCATTCATTTGCTATCTTCCTCCCTCCCCAG
Seq C2 exon
TGACCCAGACTACAGACCCATCACGGCAGCTGGAGGGTGGTAATCTCGCTTTGGCCATCCTGTTGCCCCTGGGCTTGGTCATTGTCCTTGGCATTGGCGTTTACATATACTACACTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030683:ENSMUST00000106335:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.005 A=NA C2=0.117
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=89.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TAAAGTACGAGCCGTGCCTGA
R:
GTATATGTAAACGCCAATGCCAAGG
Band lengths:
302-1023
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