MmuINT0134178 @ mm9
Intron Retention
Gene
ENSMUSG00000040146 | Rgl3
Description
ral guanine nucleotide dissociation stimulator-like 3 [Source:MGI Symbol;Acc:MGI:1918996]
Coordinates
chr9:21793293-21793897:-
Coord C1 exon
chr9:21793809-21793897
Coord A exon
chr9:21793404-21793808
Coord C2 exon
chr9:21793293-21793403
Length
405 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
GAGCCCGCCTCCACATCCAGGCG
3' ss Score
5.14
Exon sequences
Seq C1 exon
CGCTGGCCCTTCCGCTTCACTCAGCGGCGCCAGGGAGCAGGACGGGCACCGGGGCCATGGAGAGGACAGCGGGCAAAGAGCTGGCCCTG
Seq A exon
GTAAGAGGAAGCTGGGGATCCTCGGACCCCACGTCCCTAGTGTACCCCCAGATTCAGAAACTCCAGGCGACCGCCCCTCGTTTTCTAATCTTTCTGCAAAATGGATGTGCCTTGGAGTCCCCATTTGGGGATTCAGAGTTCCTGACCCCGTGAAGCGGCTAGTTTGGGGGATGGGGACGGGGGTCTGAGGAATCTCAGGAGGAGGTGACAGATTCTTTGTGACATTGGACTCTGGGATATCCCCAAATGATACTCCATCCACTCAAGACCTGGGAGAAGGGTATCCGTGGCGAAGACCTGGGATCCCACCCCGAGTCTTGAATACTCTGTTCGGGAAAGTGGGCCAAACATAAAGGCAGGGGGCTGAAGCCGGAGGGACTTCCCTGAGCCCGCCTCCACATCCAG
Seq C2 exon
GCGCCGCTGCAGGACTGGGGCGAGGAGACCGAGGATGGCGCCGTGTACAGCGTCTCCCTGCGGCGGCAGCGCAGCCAGCGCTCGACCCCAGAGAGGTCTGGAGAAGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040146-Rgl3:NM_023622:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.455 A=NA C2=0.873
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0061815=RasGEF_N=PU(19.0=46.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGGCCCTTCCGCTTCA
R:
TGGCCTTCTCCAGACCTCTCT
Band lengths:
198-603
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: