MmuINT0131731 @ mm10
Intron Retention
Gene
ENSMUSG00000049044 | Rapgef4
Description
Rap guanine nucleotide exchange factor (GEF) 4 [Source:MGI Symbol;Acc:MGI:1917723]
Coordinates
chr2:72195637-72196276:+
Coord C1 exon
chr2:72195637-72195721
Coord A exon
chr2:72195722-72196215
Coord C2 exon
chr2:72196216-72196276
Length
494 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
TTTCTTTTTTCCCCCCCTAGGTG
3' ss Score
13.76
Exon sequences
Seq C1 exon
ACCTGGCCAGAGGACTGTGGATGACCTAGAGATTATCTACGACGAGCTCCTTCATATTAAAGCCTTATCCCATCTCTCTACCACA
Seq A exon
GTGAGTATCTCTTAATCAAGCTGTGGTGCACAGGCATCCACTCAAGCAATCACCATACACACGAGAGAAAATTAAATACAAACCACAGGATGAAAAAAATAACATCTCAGCCTAAGAAATGACTCAACGTGGGTATAGCTACAAGCCTGACAACCAGAGCCCCATCCCAGTAGCCTACGTGGTAGTCAAAGAGAACCAGCTCCCGAGAGTACACCGTGTGTGGCATGCAGTCACCCCACAAAATAAATAAATGTCCCTTAGAGGTCTGCCTGATGGGGATTGTTACAAGCTTGTCTAGACAGTAGTTTTGGAATAGACTTTCTGATCCAAGTAGAAGTCTAGTGAAAGTATTTCTGGATGATAGGAAATCGTATAATCTGTGTGATAGATAACTTTAGGCGAGCCTGAAAACCACCTCTAACGGGCACCACGCAAAGCACAAGTCCCTTCTCCTGTCCCTTGTCTTCCCACATTTTTCTTTTTTCCCCCCCTAG
Seq C2 exon
GTGAAACGGGAGTTAGCAGGTGTTCTCATTTTTGAGTCTCACGCCAAAGGAGGAACTGTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000049044:ENSMUST00000090826:11
Average complexity
IR
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:
NO
A:
NA
C2:
PF0002724=cNMP_binding=PU(10.3=42.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
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