MmuINT1029458 @ mm10
Intron Retention
Gene
ENSMUSG00000023015 | Racgap1
Description
Rac GTPase-activating protein 1 [Source:MGI Symbol;Acc:MGI:1349423]
Coordinates
chr15:99642883-99643523:-
Coord C1 exon
chr15:99643393-99643523
Coord A exon
chr15:99642972-99643392
Coord C2 exon
chr15:99642883-99642971
Length
421 bp
Sequences
Splice sites
5' ss Seq
TAAGTGAGT
5' ss Score
6.43
3' ss Seq
TATATTTGATTTCTTGGCAGAAA
3' ss Score
6.26
Exon sequences
Seq C1 exon
GGTTTCTCTGTGTAGCCCTGGCTGTCCTGGAACTCACTCTGTAGACCAGGACCCAAACCCAAGAGATCTGCTTGCTTTTGCACCTCAAGACTAAATCTAAAGGTGTGCACCGCTACAGCCTGGCTTTATAA
Seq A exon
GTGAGTCTTTTATTGCAACTTCGATCTGGCACATGCTTGTAATCTCAGCATTTGGAAGGCTGGGGCAGGAAGATTGTGAGTTCAAGGCCAGCCTGAGTAACACAGTGAGAGATTGTCTTAAAATATAAACAAGCAGCCTGGTCGGATGATGTATGCCTTTAATCCTAGCATAGACAGATCTCTTAAATCAACGGGGGGGGGGGGGGGGGGGGAGGAGGGAGAAACAAAAAAAGAAACAAAAGGAAAGACGTTTTAATATAACTTAAGATCACGAAGAATTGTCGGCGTGAGATTCTTACGATGTGGCTGCAGAGAGGAGAGCCCAGGTGTCGGCCACTGGTGGATTTACTAGGTTGATGCAGGATCTTTTGTGAGGGGGAGAAAGCAGCTTCCTCCTAATGTATATTTGATTTCTTGGCAG
Seq C2 exon
AAAGATGGATACTACAATGGTGAATTTGTGGACTCTGTTTGAGCAGCTTGTGCGCCGGATGGAGATTATCAATGAAGGAAATGAAAGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000023015:ENSMUST00000171702:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.023
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF059116=DUF869=PU(15.3=62.1)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTTTCTCTGTGTAGCCCTGG
R:
TCATTGATAATCTCCATCCGGCG
Band lengths:
206-627
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