MmuINT0142288 @ mm9
Intron Retention
Gene
ENSMUSG00000058153 | Sez6l
Description
seizure related 6 homolog like [Source:MGI Symbol;Acc:MGI:1935121]
Coordinates
chr5:112902438-112904606:-
Coord C1 exon
chr5:112904049-112904606
Coord A exon
chr5:112902572-112904048
Coord C2 exon
chr5:112902438-112902571
Length
1477 bp
Sequences
Splice sites
5' ss Seq
CAGGTATAC
5' ss Score
7.48
3' ss Seq
CAATGTTTGTTTCTCTGTAGCTC
3' ss Score
8.3
Exon sequences
Seq C1 exon
ATGGTGGTCCAGAGGGAGAGATGCACCCTTCCACTGCCTACCTCCTGCCCTCTGCCTCGCTGGAGAGTAGCCTGGAAGAGGGGGTGACATCAGCAGCCCCAGGTCTCCTGCCATCCCAAGAAGCACTGGAAGCAATGGAAGAGTCCTTGCCCCCTGCGCTGCCCGACGAGGCCAGTGTCCAGCACACGCCTGCCCTAAGGAAGGGTCTGCCGTCCCTGAAGCAACTCAACTCGGCCCGGAGGCAGCTGAGGCCCCTGGCTACCCCGACAACTCTGCAGAGACTGGGGTCTCCTGCCTCTGCCACCACGAAGCTGCGTGAGCCTGAAGACCCCGAGCAGCCCACGGCGCCTGCGCCACTGCAGATCGCGCCCTTCACTGCACTGGCGACCACACTCCCACACAGCCCTCAGCCCGCTCAGGCCCCTGATGACAGCAGCCCCGGTAGCCCGCTGGACAAGGGGGACAATGAGCTGACCGGGTCTGCCTCCGAGGAGAGCCAGGAGACCACCACGTCCACCATCGTCACTACCACCATCATCACCACGGAGCAGGCCCCAG
Seq A exon
GTATACGAGGCTCATCTCCCACCCCTGAAGTCTTTCATTTCTGGGTTCTCCATAGTGGATGTGGTCTCCATAGTGGGTGTGGTCTTCTTAGTGGGTGTAGAACTAGAGCCCTGAGCCTGGAGGGGGCGCATGCCAGCACAGAACCACTCCAGCTGTCATTTTTCAGGTGGGAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCGTGCATGCGCGCACACCTACTGTGAAAAGAATTCAGGTCTGGCAAATGCTAGCTAGGCAAGCGCCCTATTATAGAGCCACACCCACATGCAAAGTGCACTGACTTTTCCAGTCTACTGTCCCTGCCTTACATTGTCCTCCTCGTCTGCACAGACGGCCAAACTATTCAGAAAATTTAGCTGTATCAGTCCCGTGAAACCCCAGACTTCTTCCCTAAACCATACAAGAGCTGCTCACTCAGCGTTCTGTCGTCATAGGGCTGGGGATTCGTTGTAGGTGATCAAGAACCTAAGTAAGGAAGATGCTCATTTCCGATGGAAGGGTCTGGAGCTTGGGTGGAAGCTGATATGCAAGGGAACCACAGAGCCCCCCACCACGATGCTCCACAACGTGGATGGATTGCTGGGCCTGCTCTCCCAGCCTGGGCTCCCGGCCTGTCTGGGTTGGGGCCTCACCGGTCAAGCTTGCCTCTATTTGGCTGCTCACTGTGCAAGCAAGGGTGCAGGGAAACCTTGGAACTAGACTTCTCCGTGGGTGGAAAGAAAGGTTTATTGGGGAACAAACTGCCAAGGCCATCTCTGCCACCCTCCTGGGGAGGGGGTTGGGGCCCCCAGAGAGAGGAGCAGAAAGTTGGAAAAGCGATTGGATTTTATATGACAGCAGGGTGGGGGTCTTTGAGCTGAGACAGACGGAACGCAGATAAACCTGGAACTAGATGCCCTTGTTAGAGCATCTTTGGAGTAGATTATAGGAGCTTCCCATTTGTAGGGGTCAGGGATACTGCTTTGGACGTAGCAACTGAAGGCTGACCGTTGGGTCTGAATCATGTGTGCTGTCCAGACAGGGCCTTCCCTGTACTTTGGTTTGCTGGTCCTTAAGCTGGGAATGGAATGGTGTCCTGTCTAAGACTGAGTGGGGCTGCTCCTGGTGACTAGTTACTGCAGTCAGGACAGGGCAGAGTTCAGCACGAGGCTCCCCTGCACTTCCATAGATACCCTCCCCAGACTCTTCCTTGGCAGCTTCTCTTTCCTGTTGCCCAGCAACATAGTCATAGCTGCTTTTGGTTTTGTGTTGACTCCAGGGGAGGATGGGGGTGGGGTGGACGCACAGTAGAGCCCAGACCTCCAAGAGGTCAGGCTCCACCCTACAACACATCAGTGAGTGAGCTCCAGGGCTGGCTGCAGCCCTGTGTATCCGGATGGCAATGTTTGTTTCTCTGTATCCTGATGGCAATGTTTGTTTCTCTGTAG
Seq C2 exon
CTCTCTGCGGTGTGAGCTTCTCCGACCCGGAGGGATACATTGACTCAAGTGATTTCCCTCCACAACCCTACAGCAGCTTCCTGGAATGCACTTACAATGTGACGGTCTACACTGGCTACGGGGTGGAACTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000058153-Sez6l:NM_019982:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.944 A=NA C2=0.133
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0043115=CUB=PU(39.6=93.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTACCCCGACAACTCTGCAGA
R:
TCAATGTATCCCTCCGGGTCG
Band lengths:
343-1820
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: