MmuINT0140019 @ mm9
Intron Retention
Gene
ENSMUSG00000007279 | Scube2
Description
signal peptide, CUB domain, EGF-like 2 [Source:MGI Symbol;Acc:MGI:1928765]
Coordinates
chr7:116975181-116976639:-
Coord C1 exon
chr7:116976523-116976639
Coord A exon
chr7:116975304-116976522
Coord C2 exon
chr7:116975181-116975303
Length
1219 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
GGACCAATTTTGTTCCACAGACA
3' ss Score
7.72
Exon sequences
Seq C1 exon
ATGTGGATGAATGTTCGTTGGAAAGGACCTGTGACCACAGTTGCATCAACCACCCTGGCACATTTATTTGTGCCTGCAACCCAGGGTACACTCTCTATAGCTTCACCCACTGTGGAG
Seq A exon
GTGAGTGGGTGGCCCCTCTATGGTGAGGCCAAAGCCTGGGAGCAAGCCACCCTTGAGGGTCATCTCCCTGTTTTGTGACAAAGGGTATATTCTTGGACAGTGGCAACAAGAAGAGCATTTGTCGAAAGGAATATGTTCATATTTACCCTGCTAGCACACCAGGTATTCAATGGAGTACAGAAGAACTGAGCTCTGTCAGCTATGGATTCATCAGTGATTTGACTTGAGTTTATATTTGGAGAGTCTTACAGGAGCTGAGACAATATCCCATTGGCCTTCCCAGCCGAAGATAATGTGGTTATCTTCAGAGAGGCGTGGCAGGGCACCCAGCAAAATCGTAGTTCTGTTCTGCAAAGCCTTGGATCAAGCCTTCCAGTTAGGGCTTGGGTCCAGAAGGGGAAATTGACTCTCTCTTTGTTGTGTGCCTGTTTAACAGTATATGTTTATGCCTCATACCCTTATGGTCAAGTAGGCTGTGGTATATATATGTCAGTGCCAACTGATTCTCCCTCTACTTTCCTGGCAATCAGCCATCATTGAGACCAGATCTAGACTCCAGAACAACTTGTCTAAGGTCTCCATGGTGATCCTAAATATCTGTGGGATTTGGGGACCACTGGCTGGAGCACTTCTTGCCAATTCTCATGCCCTGTGTTTGAGACGGACAGATAATGGTGTTTTGCTGTAGATGGCTGTGCCTCCCTTCTCTCTCTCTCTCCACATTCTTGGCACAACTAAAGGCATACCTTCTACCCTACCCTATCTATCATGAGACTCCAGTGGGACACATAGATGTCAACCTGGTTGGGAGCCTCCTTCCAGTTTAGGTTCAGTCCCAAGTTGATGGGGATGTAGGTTCTCACTACTTTTCTTCTCTCTTAACTGTGGGAACAGTCAAATATAGAGTTTTAATTCTGTCTGTCTCCCTTGGTATGTAGTTCAGAGGGTGGTGGAGTTTCAAGTTCAAAGCCCATATGGGGTCTGAGTCTGGATACCTGCAAGTAAGTGCTCTCCCTTTCTGAGTGTTCCTGTCAATGGTTAAAACTCTCAACCAAGGCACATGCCAGCGGGGAGTGTGCAGTGTGCAGCCAGCAGGTGTCAAGTGCATGTCCCTCAAAATGACTGTCAACCATGTGACTCATCTACTGCTTCCTCCTCAAGGGAGAGACAGTCAGCCTTTGATGTACTGTTGCAACAGGGGACCAATTTTGTTCCACAG
Seq C2 exon
ACACCAACGAGTGCAGTGTCAACAATGGAGGCTGCCAGCAAGTGTGCATCAACACAGTGGGTAGCTACGAATGTCAGTGTCACCCAGGGTTCAAACTCCACTGGAATAAAAAAGACTGTGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000007279-Scube2:NM_020052:10
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:
PF0764510=EGF_CA=WD(100=95.0)
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=85.7)
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:
TGTGGATGAATGTTCGTTGGA
R:
TTCCAGTGGAGTTTGAACCCTG
Band lengths:
222-1441
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: