MmuINT0131740 @ mm10
Intron Retention
Gene
ENSMUSG00000049044 | Rapgef4
Description
Rap guanine nucleotide exchange factor (GEF) 4 [Source:MGI Symbol;Acc:MGI:1917723]
Coordinates
chr2:72225749-72226077:+
Coord C1 exon
chr2:72225749-72225779
Coord A exon
chr2:72225780-72225998
Coord C2 exon
chr2:72225999-72226077
Length
219 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
TGTGCTTGTTATTTTTACAGCAC
3' ss Score
9.17
Exon sequences
Seq C1 exon
CTCAGAAGACGCAAAAGCTCCACAGAAGAAG
Seq A exon
GTAAGGGCTCTTCAGAGACCAGCACTGTCTGCACCCTGTAGCATCGAGATTATCCAGAGACCCTGGGTTGCAGTATACCGAATCGATGTCTCCTTTGTGCACAGGAAACCTTTTTTGCTTCATTCTGGGGCTCTAATTGCTTCTCGGATGCATCTTCTCCAAGTTGCCGTGGTTTGTTAGTCACTCTCCCTCACATAGTTGTGCTTGTTATTTTTACAG
Seq C2 exon
CACAAGGTGCTTTTGCAACAGTTCAACACAGGTGACGAGAGGGCCCAGAAGCGTCAGCCTATTCGTGGCTCTGATGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000049044:ENSMUST00000090826:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.023 A=NA C2=0.130
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0078818=RA=PU(2.5=7.4)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types