MmuINT0140000 @ mm9
Intron Retention
Gene
ENSMUSG00000016763 | Scube1
Description
signal peptide, CUB domain, EGF-like 1 [Source:MGI Symbol;Acc:MGI:1890616]
Coordinates
chr15:83450486-83451563:-
Coord C1 exon
chr15:83451459-83451563
Coord A exon
chr15:83450603-83451458
Coord C2 exon
chr15:83450486-83450602
Length
856 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACC
5' ss Score
8.66
3' ss Seq
GGAATTTTGGCTTTCCCCAGATG
3' ss Score
7.12
Exon sequences
Seq C1 exon
ATTCAGAAAGCAGCTACATCCTGAGCTGTGGTGTTCCAGGTCTCCAGGGCAAGACACTGCCAAAACGCAATGGCACTAGCTCCAGTACAGGGCCCGGCTGCTCAG
Seq A exon
GTAACCGTGGGCCTGTCCACACTGAACAACTAGATGCCCCTTTCCATTCTTATCCAGTGCATGCGTCAGGGGAAGGGAGGGGGATTGCTCAGGGCCCTGCCCAGCATGGCTTAGGATTCTGGAGAGGTGACAGGGCCAGGACCGTGAAGTCTAGAGACTGAGGCCCAGCCCACAGTCAGGGAGCCAGCAGAGGGCCTTTCTGACTGCTGTCACAGTCGTACAGTGATTCTGCAACTGCGGGCTGTTTGAGACTGGCTCATCTAGCCCAGGCTAGCCTCGAACAAGCTATGTAGCAAAGGATAGCCTTGAACTTAGGTCCCAGAGATGGCCTTGAATACTATGCCTAGGAGGTGCTCAGGGTCCTTGCCTCTCAGAACGGACCCTGCTCCCATACAGCACAGAAGGTTGGGATGTTGTGACAAGGACATCTAGGATGGGTTCTGAGAATTCAGGGTCATAGGACTCCAGTCTGTGGAGCTGGGGTCTGCTCTGAAGAGGTTCTACGTGTCCTGGAGTTTGCAGCCCCCCCCTTCCTTGCACTTCTCTGTCCTCTTTCCCACAAGGACAAGCCATGTTTATGACTTTGGCCATGAAGGAAGAGGTGGGCAGCAGCGTCCTTTCCTCCCCATAGAAGGCTCTGGCCTTGAGTCCTGCATACACTTGTTTCAGGCCTTACAGACAGAAAAAGAAGTGGGTCAGGGGAGGGTCCTCCACCCAGGAGGGCTGCCGGGGCAGAAGGGCCCACACCAAGCCCCGCCTAGCTCCAGAAGGACCTGTCCTCTGGCAGCCCCCGTCCCCCACCACCTCCTTGCCCACAGGAGAGGCCGCCACCTGGGGGAATTTTGGCTTTCCCCAG
Seq C2 exon
ATGCCCCCACCACCCCTATCAGACAGAAGGCCCGCTTCAAGATCAGAGATGCCAAGTGCCATCTCCAGCCCCGCAGCCAGGAGCGAGCCAAGGATACCCTGAGGCATCCCCTTTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000016763-Scube1:NM_022723:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.444 A=NA C2=0.250
Domain overlap (PFAM):
C1:
NO
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:
ATTCAGAAAGCAGCTACATCCTGA
R:
CTAAAAGGGGATGCCTCAGGG
Band lengths:
222-1078
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: