MmuINT1029528 @ mm10
Intron Retention
Gene
ENSMUSG00000022469 | Rapgef3
Description
Rap guanine nucleotide exchange factor (GEF) 3 [Source:MGI Symbol;Acc:MGI:2441741]
Coordinates
chr15:97750260-97750888:-
Coord C1 exon
chr15:97750791-97750888
Coord A exon
chr15:97750395-97750790
Coord C2 exon
chr15:97750260-97750394
Length
396 bp
Sequences
Splice sites
5' ss Seq
CTGGTAGGG
5' ss Score
6.35
3' ss Seq
TGAGCATTCTTCTCCTACAGACC
3' ss Score
9.13
Exon sequences
Seq C1 exon
ATGTCGTTGGCTTGCAGCCAGATGCCCGTGGTGTGGCCACATCCCTGGGGCTCAACGAGCGGCTCTTTGTTGTCGACCCACAGGAAGTGCATGAGCTG
Seq A exon
GTAGGGACAGGCAGGCTGCCAGAGCCCGAGGAACTCTGGGACCAGGAGGCAGGGTGGGTTCTGGGGGGTGGCCACAGAGAATGGAGGAACGTGCTTGCCTCTGGCTGCTCCTGAGTCTTCACTGGGAGAAAAGGGAGGGTGGGCCACAGCATTTAGAGATGCCAAGGGGAAAGAGGGGCTAGCTAACCCTAACTCCAGGGTCTCAAGCCAGAGTTCCAGCATGAGGGAACTGTCAGAACAGTGACCCCTCAGGAGAGCCCATTTTTCACCGTCCACAGACCCGAGAAGCATCTCTACTTCCCAGTGCCCTGTCTGTCTGTCCGCTGTCCCTCTCACCACCACAGGCAGAGTTTTTGTCCCAGGTCCTCCCTGTGTCTGAGCATTCTTCTCCTACAG
Seq C2 exon
ACCCCACACCCTGAGCAGCTGGGCCCCACTCTGGGTTCTTCTGAGATGCTGGACCTAGTGAGCGCCAAGGACCTGGCAGGCCAGCTGACCGACCATGACTGGAACCTCTTCAACAGGATCCACCAGGTGCAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022469:ENSMUST00000129223:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.091 A=NA C2=0.195
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0061714=RasGEF=PU(15.2=60.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGTCGTTGGCTTGCAGC
R:
CTGCACCTGGTGGATCCTGTT
Band lengths:
230-626
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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