MmuINT0142301 @ mm9
Intron Retention
Gene
ENSMUSG00000030683 | Sez6l2
Description
seizure related 6 homolog like 2 [Source:MGI Symbol;Acc:MGI:2385295]
Coordinates
chr7:134110528-134111259:+
Coord C1 exon
chr7:134110528-134110719
Coord A exon
chr7:134110720-134111220
Coord C2 exon
chr7:134111221-134111259
Length
501 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCCT
5' ss Score
5.39
3' ss Seq
TCCCCCTCCTCTCCCTGCAGTGG
3' ss Score
11.81
Exon sequences
Seq C1 exon
TAAAGTACGAGCCGTGCCTGAACCCCGGTGTTCCTGAGAATGGTTACCAAACTCTGTACAAGCATCACTACCAAGCGGGCGAGTCGCTACGCTTCTTCTGCTACGAGGGCTTTGAGCTCATCGGCGAGGTCACCATCACATGTGTACCCGGTCACCCCTCCCAGTGGACCAGCCAGCCCCCACTCTGCAAAG
Seq A exon
GTGCCTGGGCAGACAGGGCAGGAGGGGCATAGCGGTATACGGGGAGTGACAGGGCTAGAAAAGTTGGGTAGAGAATTCGAGAACAATGGCTGACCCTGCTGAGTGCCTGTCCTGTGGGCTCTTATCCTTATAGGCATGGCTGGAAAACCTGGGGAGATCTGAGGTCCCACAATTATCAAGGAATGTAGTGAGGGCCTTGGTTTAGAGGCCCCTGCTCTCTCTACAAAGGGAGAGTTTTGCTGTCAGTGAGAAATTCTGAAGCTGCCTGGCTCAGACTGTCCAGGGACCTTGAAGCTTTAGTGGTCTGAAGGGAGAGGACAGGCCTTGACCCATCAGTCCTCACGGCCTCCACACACTCAGGGAGAGACGAGTTCAGATTGAACAGAGGGCAGAGAACCAGGCTGTGCAGCCCAGCCTCGCCCCACCGGGCTCTGGCCCTCTCCTCAGTCTCCTTCCCTCCCTGGCTCAGACCCCGTCCCCCTCCCCCTCCTCTCCCTGCAG
Seq C2 exon
TGGCCTATGAGGAGCTCCTGGACAACCGAAAACTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030683-Sez6l2:NM_144926:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.006 A=NA C2=0.071
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=89.2)
A:
NA
C2:
NO
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:
TAAAGTACGAGCCGTGCCTGA
R:
TTCCAGTTTTCGGTTGTCCAGG
Band lengths:
230-731
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: