MmuINT0142282 @ mm9
Intron Retention
Gene
ENSMUSG00000058153 | Sez6l
Description
seizure related 6 homolog like [Source:MGI Symbol;Acc:MGI:1935121]
Coordinates
chr5:112865303-112867616:-
Coord C1 exon
chr5:112867422-112867616
Coord A exon
chr5:112865495-112867421
Coord C2 exon
chr5:112865303-112865494
Length
1927 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
ATGTACTCTTCTCTTGGCAGTTA
3' ss Score
8.73
Exon sequences
Seq C1 exon
AGGTGTCACGGAACGACTCCTGCTCAGACTTGCCTGAAATTCAGAACGGCTGGAAAACTACTTCCCACACAGAGCTGGTCAGGGGAGCCCGGATCACATACCAGTGTGACCCAGGCTATGACATTGTGGGGAGTGACACCCTCACCTGCCAATGGGACCTCAGTTGGAGCAGCGACCCGCCGTTTTGTGAAAAAA
Seq A exon
GTAAGTCAAGTTTTATTTTCTCCCTAAGACATTAGGTGGAAAGCCCCTCCTAAAGGCACATGCTTAAGGTAGGGACTGGTTTCCTCTCTTGAATAATATTTATCAGAACCCCAGGCTCTGATGCCTACAACCTAGTGGGAATGCAAATAAATAAAATACATTGAGTGGAGGGTGACAGGGGAGCAGTGGGGACTGTAGCAAATGATAGTGTGTCCAGCCTGCGTGGAAGCCATGTTGACTCTTTAAAGCCAAATCCATCCTAGTAACAGCTCTGCCTCCCTCCATGGGCAGCTAGCTCCCTGCTAACTTCTGGGTGTGGCACACCCCCCCCCAGGAGTACAGAGCCATCCATGAGTTGTAGCTGTGCTCCCTGTCCTGAAAGGGGGATCAAAAAAGGGGTGCTGCTGGGTGCTGCTGGCTTCTCCCTGATGTCCTACAACAAGGGAAGGAGCTGAGCCTATAAGCGGCCTCAGGGACATCAGGGTGACAGTTTGTTATTCCTGATTCGCAAAATCAGAATCAGAGCAGCTCAATAATAACACGTATTGGCAGAGGATGAAGGGGGATGGGAAGGGACGGGGCAGGAACTGGGCCACATAAGAAAAAAGACAGCAACCAGGCAACACAGGAAATGCTGCTGAAGAGCCACAGTCACTCACTCACACATGTGTGGTGCCTGCAGCACACTCAGACGGACACAGGCAGGCAGGTAGGTGGGTGGATGGATGGACAGATGGATGAATGGATAGATGGACAGACAGATAGACAGATGGACAGATAGGCAGATGGGTTGATAGGTATGGATGGACCAGGTCTGTGCATAGATTGTTACTGACATTTCTTATGTAGGTATTTCTCTGCCTCTCTCCATGTATAGATGTACACTTATATCTCTCTGTGTGTACATATATATGTGTGTGTGTATGCATGGGTGTGTGTGGAATCCTAGACATGGATGTTTATGCTGATAAGATAGAGTTATAGACCATATGTTTAATATACAATGTGTATGATATCATACATACATACACACATACAGTAAGTAATGTACAATTATATGTGGCATATAATCTGTCTCTCCATATCTATATAAAAGTATATCTAGGTGGATGGGTGGACAGATGGATAGACGGCTACACAGACAGGTAGATAGATGGCTACATGAATGAACAGATGGATAGGACAGACGGATGGTGGCTAGACAGACAGATGGCTTCAGGTAGAAATAGTTGCAGATAGATACTACACATGGAGGGATGCGCATGAGGGGATGCACCTACATCAACTGCGCATGGTGGCTCTGATTAGGACGGTGGACGCCATTCACATCACTCCGGTGCTCGCTTCCTTCCTTTTTAATTAGTTTACTGTTTCCCTTTTATCTGTATTGATTTTTTAATTAAACTGCAATTGATGCTTGTTTCCAGTGTCAGGCATCACAGAGAGAACAGGGGCAACCCTCACTTGGTTCCTCCCACTCTGGCTGTTGCTCAGGATTTCATGGAATGGAAGCACAAACTGAGCTCTCCCCTTTTCACCGTGCTCCCCTACCTGTGCTCCCCCTCCTCTGTGCTCCCCACCCATGCTCAACCTCCTTGCAGTGCTCTCCACCCATGTTCACCCTACTCACAATGTTCCCCACCCATGCTCACCCTACTCACAGTGCTCCCCACTCATGCTCACCCTCCTCAGTGATGACTTATTCCTTAGAAATAGATTCAAGACCTAGTGAAAAGTCTTGGGACACATTCAGGAATAGCATTCCAGTCTCTTCCCACCTGGCTTGTTCTCCAACCACCTCGGAGAATCTGTGTGCCGTGTCCTTAAAGGGCAAAGGGCTGACCCAGGAAGCTTTCTACAGAAGATGCTTCTGTAAATCTTGGTGGCCTGTGCATCAGCGTGGGTCCATGTACTCTTCTCTTGGCAG
Seq C2 exon
TTATGTACTGTACTGACCCCGGGGAGGTGGAGCACTCCACCCGCCTCATTTCAGACCCTGTGCTGCTAGTGGGCACCACCATCCAGTACACCTGTAGCCCTGGCTTTGTGCTTGAAGGGAGCTCTCTTCTCACCTGCTACAGCCGCGAGACAGGAACTCCCATCTGGACATCTCGCCTGCCCCACTGTGTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000058153-Sez6l:NM_019982:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=84.8)
A:
NA
C2:
PF0008415=Sushi=WD(100=92.3)
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:
TCCTGCTCAGACTTGCCTGAA
R:
AGATGGGAGTTCCTGTCTCGC
Band lengths:
343-2270
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: