MmuINT0142284 @ mm9
Intron Retention
Gene
ENSMUSG00000058153 | Sez6l
Description
seizure related 6 homolog like [Source:MGI Symbol;Acc:MGI:1935121]
Coordinates
chr5:112855746-112857590:-
Coord C1 exon
chr5:112857396-112857590
Coord A exon
chr5:112855779-112857395
Coord C2 exon
chr5:112855746-112855778
Length
1617 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAG
5' ss Score
9.06
3' ss Seq
CTTCCTGTTTTCTGTTTCAGTTA
3' ss Score
12.33
Exon sequences
Seq C1 exon
CTGAGGAGTCCCTGGCGTGTGACAACCCAGGACTGCCTGAGAACGGGTACCAGATCCTGTACAAGCGGCTGTACCTGCCCGGAGAGTCCCTCACCTTCATGTGCTACGAGGGCTTTGAGCTCATGGGCGAAGTGACCATCCGGTGCATTCTGGGACAGCCGTCCCATTGGAGTGGGCCCCTGCCCATCTGTAAAG
Seq A exon
GTAAAGAAAGAGACCCAAGGAGCCAGGGTGAGGGCTATCTCCAGGGGAAACTGAGAGCTTGCTCTGGGGAGAGGAGGGGGTCACAGAATACAAATCCAGTGGGTGCCTGTCCAGTCTGGTTTCATTTCTTTTCTCTTTTTTTCGAGACAGGGTTTCTCTGTGTAGCCCTGGCTGTCCTGGAACTCACTTTGTAGACCAGGCTGGCCTCGAACTCAGAAATCCGCCTGCTTCTGCCTCCCGAGTGCTGGGATTAAAGGTGTGCACCACTACGCCTAGCCAGTCTGGTTTCTTCATTTGTTCATATATTTGTTTCTTGAGACAGGGTATCATGTAGCCTTGAACTTCCTTTGTAACCAAGGCTGGCCTTGAACTCCCATCCTCCTGCTTCTACCTCCTCAGTGCTGGGATTGCAGGTGTGCGCCACCTCACCAATTCTTGATCCCTTTTTGTTACTGTAACAAAATACCTGAGAATGGATACTTTATGAAGAAGTCTGTTTGGTTCAGGGTTGTGGAGTTCAAGGCACGACTCTGCACCTCTGGGGGATGCATGCCGCCTGCTAATGCATCAGGGCCATCCCTCAGTGGGACAAAGAGAGCATGCCAGCTCTTACAGAGCCACTGAAGCCCAGCCATGGCCCCCTCTGAAACAACATCAACCTATAAATCTGGGCACTAATTCTGAAGCCGAGAAGCCAGCTAGCTTCTCAGCAGAGGGCATCACTGCTCAATGGTGACTTCAATTAGTCAGAATCTAATCAGGAGTCCTGGGGCCTGACAGAGGATGCATGCAATGCCCTGCACAGCCTGGCCGCTCTCAGTGCAGTTTTCCACTTAAGCCTTCACTTGCTTCTACACTCTGCATCCAGGAGTGCCCTGGTGGGTGCAGTTCAGTGCTTGGCCACCAGGTGGCTTTGGTGATAGATTATCATCCCCAGCACCTTGAACTTCAGGGTTATAAAAAAAAATACGAGTTTATGAAAATAATTTATATAGACTACTGATCCCAGCCAATAACTATGGGAGGTGAATGTAATACAGTCAGTATCAGGGTCTTGAGTCACACATCCTTGGAAAAAATATATAAAAGACTCCGTGAAGATATTACATAGTTAGAGGTGGTGTCTTACACCCACCAGAACAGCAATTGAGAGGCTGTCGATGAACGTTCAGGCCAGCACAAGAGGCTGTCTTGAAAACGCAAAACAAAACCTTAAGAGCTGCGAGAGAGACTAGTGCCGCAGGTTGGAATCCCAAGTTCCCAGCTTAGACACTGTGTGACCTTTGAGGTCTCACTGCACTTCTCTGAACCCATTCGCTCTCCTTTAAAATAATGATAATGAACCATCACTGTGTAGGAGATTGGCAAGAAGTGGGTGGGAATGCACGGGCTCTTGGCGAGATACAGAATGTGTGTCATGTGCCATCACAGTCCATGACACTGCGGATGCTTGCCCATCTCCTTCCTCTCAACATCGCAGGAGGTACTGTGGGGAACTGCCTTGCAAGACACCATTGGCCCCATGCTCACCCCACACTCCTGGGGACCATCGACCCCCTGTCTGTGCAAACAGTGAACTTCCTCTGAGTTGACACTGCTTCCTGTTTTCTGTTTCAG
Seq C2 exon
TTAACCAAGACAGTTTTGAACATGCATTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000058153-Sez6l:NM_019982:13
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=87.9)
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:
CTGAGGAGTCCCTGGCGTG
R:
ATGCATGTTCAAAACTGTCTTGGT
Band lengths:
222-1839
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: