MmuINT0130896 @ mm9
Intron Retention
Gene
ENSMUSG00000023015 | Racgap1
Description
Rac GTPase-activating protein 1 [Source:MGI Symbol;Acc:MGI:1349423]
Coordinates
chr15:99468069-99470250:-
Coord C1 exon
chr15:99470045-99470250
Coord A exon
chr15:99468206-99470044
Coord C2 exon
chr15:99468069-99468205
Length
1839 bp
Sequences
Splice sites
5' ss Seq
CTGGTGTGC
5' ss Score
3.46
3' ss Seq
CACTCTGCTTTGGTCTGTAGGAA
3' ss Score
8.78
Exon sequences
Seq C1 exon
TTGAATTCATCCAGGTTGTGAAGGACTTCGAGGACTTCCGAAAGAAGTATCAAAGAACCAACCAGGAGCTGGAGAAATTCAAAGACCTATTGTTGAAAGCAGAGACTGGGCGGAGCGCCCTGGACGTGAAGCTGAAGCATGCCCGTAATCAAGTGGACGTGGAGATCAAGCGGAGGCAGCGCGCTGAGGCAGAGTGTGCAAAGCTG
Seq A exon
GTGTGCATTGCTTTGCTTATCAAACTGGTGATGGGGTGGGAAGACGTGGTTTGGTGAGGTTTCTGCTGAACATGCAGACCCAGTTTCTCTTCTACATGAAGAGCTCACTTGACATCTGGCATGTGATTAGAGATGAAACTGAAGCCTGTGACTTCAGTTTCATAGATTGAAACTTTCAGTCTTTTCGTTTGAAAATTTATTTTCTCCTTTAGGCTTGAAACAGTTTTTCACTAGACAGGTTTCAAATGAGAGTTTAAAGAATTAAAACAAAGCAGCCAAAGATGTAAAGTTGGTGAAATGTGTGCCTGGCATGCACAGAGCCTTGGACTCCAGAACAAGAAGAGAATTCTAGAATACTTATCTAATACAATTTATTTGCTATTCTTGGACTGCAGAGATGGCTCAGTGGTTAAGAGCGCTGACTGCTCTTCCGAAGGTCCTGAGCTCAATTCCCAGCAACCACATGGTGGCTCACAACCATCCATAATGAGATCTGACGCTCTCTTCAGGTGTGTCTGAAGACAGCTACAGTATACTTAAATATACTAATAAATAATTTTTTTTTGTTTTGTTTTTTGAGACAGGGTTTCTCTGTATAGCCCTGGCTGTCCTGGAACTCACTTTGTAGACCAGGCTGGCCTCGAACTGAGAAATCTGCCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGTGTGTGCCACCACTGCGCGGCTATAAATAAATCTTTTTTTTTTAAAAGAACAAAAAGAAAGAAAAGAAACACTGTACTCTATTAAAAAAAAAAACAATTTATTTGCTATTCTGTAGGTGTGGGTGTGTGTCTTTTGAGACAGGGTGCTACTATATAATCCCTGATGGCCTTAAACTCAGGAGTGATCCTCCTTCCTCTGCTTCATGAATAATGGGTTTAGTGATGCATGCCACCATGCCTGGCCTATATTGTTTATTATAAATTCAAAGAACGGGCTGGTGAGACGGCTCAGTGGGTAAGAGCACCCGACTGCTCTTCCGAAGGTCACGAGTTCAAATCCCAGCAACCACATGGTGGGTCATAGACATCCATAGCGAGATCTGACTCTCTCTTCTGGAGTGTCTAAGGACAGCTACAGTGTACTTACATATAATAAATAAATAGATAAATAAATAAATACATAAATACATAAATAAATCTTAAAAAAAGTTCAAGGTCAAAAAAAATTAATTCAAAGAACATTGCCCTCCTTTTATGAATTGGTGGCACTGGCCCTTTGTCATCACGGCTGTATAGCACAGGGTAAAGGGCTGGATGCAGTCATAGTCAAGCAGTGTGGTTGGAAGGCAGTGTGTTGTCTTGGTTGTCAGGGTGGGTCAGGGTACAGTGGAGGACGTTAGTCAAGGGGACTAGTCCATCGTAGCTCAGTGTAGATGCCTCGGGGTGCCCAGGCTGCATTACAGCTTTGTGTCTATTTTAAGGTATTTTGTTCCAACATGTAGAGAAATATGCGACTTCCTTCTTTGATCCATAAAAGAAGCCAGTAATTGTTCTGATAAAGACAACACTTTAAATATTCCTGCTCTGTGAGATCTATTCTGGGGCTCTCATTCTAGAGCTCTCTCCTTGGCTTAGCAGTTTAATCTAAAGGTCTCAGGGGGGATCTTGCTGTTCTAGATGGGGTTGTTCTTACTCATCAGAAGCCGGCCACAGTCTGGGCTTGATGTGAATTAATATTCTATTGTTGTAATGCCTTCCTGAAGGCCCATTTGCATAATGTATTTTAATGTCTTGTGCCTATCCATAAATTTGAGGTGAAGCTTTTTTCTCTGGCTTGTTGTGATGTTCCACTCTGCTTTGGTCTGTAG
Seq C2 exon
GAACAACAGATTCAGCTGATTCGAGACATACTCATGTGTGACACATCTGGCAGTATTCAGCTGAGCGAGGAACAAAAATCAGCTCTCGCTTTCCTCAACCGAGGCCAAGCATCCAGTGGCCACGCCGGCAACAATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000023015-Racgap1:NM_012025:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.073 A=NA C2=0.203
Domain overlap (PFAM):
C1:
PF059116=DUF869=FE(50.4=100),PF054786=Prominin=FE(47.2=100)
A:
NA
C2:
PF059116=DUF869=FE(33.3=100),PF054786=Prominin=FE(31.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAATTCATCCAGGTTGTGAAGGA
R:
CTATTGTTGCCGGCGTGG
Band lengths:
342-2181
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: