MmuINT0045981 @ mm9
Intron Retention
Gene
ENSMUSG00000039660 | D2Wsu81e
Description
DNA segment, Chr 2, Wayne State University 81, expressed [Source:MGI Symbol;Acc:MGI:106544]
Coordinates
chr2:30031439-30032012:-
Coord C1 exon
chr2:30031882-30032012
Coord A exon
chr2:30031512-30031881
Coord C2 exon
chr2:30031439-30031511
Length
370 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
3' ss Seq
TCCCTCTAGCTTCTCTTCAGGAG
3' ss Score
4.91
Exon sequences
Seq C1 exon
GAATCCTCAACCCCTTGGACAGCCCTCACCACATGCGTCAGGACGAAGAGTCTGAGTTTCGAGAAGGCGTCGTGGTGGACCGGCCCACCAAGGCAGGCCATGGCTCTTTGGTCAACTGTGGAATGAAGAAG
Seq A exon
GTAGGATTGGGAAGGTGGGCTGTGGTACACTTGGGGACACTTGCTAGCTATAAAAGGTAAGGACACATGAATGAGGAGACCTGAACTCCAGGCCTGCTGAGAAACACTAGTTATCCCAAAGTAGGGCTCAAGCTATGAGCCCCTCGAGGATGGAGAGGTGACTCAGTTTAAAGAGCACTGGCTACTCTTGCAGAGGACCCACATTCAGTGCCCAGCACCCACATGGCGGTTAACATCAGGTGGTTTCAGGGAATCTGGTGCCCTCTTGTGGCCTCCATGGACCCTGGACGGGGCAGGCTGACCTGGGTTATCTGACAACGTGTCCCCTTCACGGTGTGGCACTCACTCACTCCCTCTAGCTTCTCTTCAG
Seq C2 exon
GAGGTGAAGATTGACAAGAAACTGGACCCTGGACTTCGGGTGACCGTGCGACTGAACCAGCAGCAGCTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039660-D2Wsu81e:NM_172660:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.409 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0259812=Methyltrn_RNA_3=FE(14.7=100)
A:
NA
C2:
PF0259812=Methyltrn_RNA_3=FE(8.2=100)
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:
GAATCCTCAACCCCTTGGACA
R:
GCTGCTGCTGGTTCAGTCG
Band lengths:
198-568
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: