MmuINT0105101 @ mm9
Intron Retention
Gene
ENSMUSG00000036062 | N28178
Description
expressed sequence N28178 [Source:MGI Symbol;Acc:MGI:2140712]
Coordinates
chr4:42950713-42951250:+
Coord C1 exon
chr4:42950713-42950791
Coord A exon
chr4:42950792-42951044
Coord C2 exon
chr4:42951045-42951250
Length
253 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGC
5' ss Score
8.69
3' ss Seq
AGCAAGGGTGCCTCCCACAGATT
3' ss Score
3.99
Exon sequences
Seq C1 exon
GACAACCTTAACCTGCTGCTTACTGAGGAGGAGATGTATAGCCTTACTGAGACCTTTCAGCGGTGTAAAGTCATCCCTG
Seq A exon
GTAAGCCGGCTGGCGCTGCTGAGAAGGGGCCAGACACATCATCCCCTTTTATCCTTCCTGGGGTGAACAGTGGGGTTTGGGGAGTAAGGATGAACGGCACCCACTTCCGCCACAGCTCCCCCGAGCTCCTCTGGCTACGGGAGGCATGATGCGACAAGAGCTGGGGCCGTGGGGCCCTGAGGGTGCCCTGGAGGACAGTGAAGGTGCCCAAGGCGAGGAAGGTGGCCGTGGCCAGCAAGGGTGCCTCCCACAG
Seq C2 exon
ATTGCTCCCTGACACTGGAGGACTTTGTGCGCTACCGCCACCAAGCAGCAAAGCGAGGGGAGAGCAGCAGGGCCCTGACTGACGAGCAAGAGGAGCAGGCAGCCCGCCAGTTTGCAGCCTTGGACCCTGAACAACGGGGTCACGTAGAGTGGTCCGACTTCTTGTCCCACGAATCCCTTCTTCTGCTGCTGCAGCTGCGTCCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036062-N28178:NM_172690:6
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=0.227
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:
GACAACCTTAACCTGCTGCTT
R:
GCAGCAGCAGAAGAAGGGATT
Band lengths:
271-524
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: