MmuINT0131748 @ mm9
Intron Retention
Gene
ENSMUSG00000049044 | Rapgef4
Description
Rap guanine nucleotide exchange factor (GEF) 4 [Source:MGI Symbol;Acc:MGI:1917723]
Coordinates
chr2:72079484-72080378:+
Coord C1 exon
chr2:72079484-72079534
Coord A exon
chr2:72079535-72080290
Coord C2 exon
chr2:72080291-72080378
Length
756 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
3' ss Seq
CACTTTTGTTTTCTCCCAAGGAT
3' ss Score
8.44
Exon sequences
Seq C1 exon
AAACTGCCGAGCAAGTTTAAGAAGTTCTATGCGGAGTTTGAGAGCTTGATG
Seq A exon
GTAAGTGACAGTAGCTTCTTTTACTCTGCTCACTGTCCGCATTAATCCAATTTCTGATTAGCTCAAGTTCTCATTGCAGAAATTTTATCCGTCCTTGTATGACTTTAAGAAGTTTATGATCCCTTTTAGTGCTGCTAAAACAAGCATGTCTGACTAATGAATGGCCCCCTCAGGAACTAACTTAAAGAGGACTTATGTCCCACATAAGGTCAATTTGTGTAAGTTAGCAAAGCAGTGTGATGGGGTCCCACCTAACACCGCTCAGGTGGCTATGGGTTGGAGCTATGTTTCTTGGCTTGCCAAAATTATGTCTCCCCGTTGTCTGGGAGGTGTTACCAGACAGGAAAGTGGTGACTGGGTCTTGCTGCCGGGCAAGGAACGGTTCAGGGGGCAAGTTAGGACTGGCTATGCCAGAGCATGGGGTAGGGAGCCGAGCTTTGGGAAGGAGGTGGGGCATCGTTGAGTCGGGGATCTGTCCAGGTTTGTTTTACACTGTTTTTTTTTGTATTCAGAGGGATGCCTCCCCTTGGCGCCTGTGGGTGCCTTCAAACCAGAACAGAAATAAACAGCACAGTATTGTCTCACAAGCATGTGAAGTTGTTTTTAAAACAAACCAAACCTGTTTAAATCTGCCTTTCTCCCAGAGTATCTCATCCCCAAAGACACACAGCTGTGGGATGCTTTGTGTGCTGCGGAGGTTAAAAAGGGGGCGTGGCATGTATCACTCGTCACTCAACACTTTTGTTTTCTCCCAAG
Seq C2 exon
GATCCTTCCAGAAACCACAGGGCATACAGGCTGACAGCAGCCAAGCTGGAGCCCCCTCTCATCCCTTTCATGCCCTTGCTTATTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000049044-Rapgef4:NM_019688:26
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:
PF0061714=RasGEF=FE(8.6=100)
A:
NA
C2:
PF0061714=RasGEF=FE(15.7=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:
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: