MmuINT0130901 @ mm9
Intron Retention
Gene
ENSMUSG00000023015 | Racgap1
Description
Rac GTPase-activating protein 1 [Source:MGI Symbol;Acc:MGI:1349423]
Coordinates
chr15:99461540-99462628:-
Coord C1 exon
chr15:99462511-99462628
Coord A exon
chr15:99461671-99462510
Coord C2 exon
chr15:99461540-99461670
Length
840 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGA
5' ss Score
5.06
3' ss Seq
TAAATTTGGTCTTTTTCTAGGAC
3' ss Score
9.3
Exon sequences
Seq C1 exon
GCAAATGAATCAATAGTTGCAAAAACTACAGTGACTGTTCCCAGTGATGGGGGACCCATTGAAGCTGTGTCTACTATTGAGACATTGCCGTCCTGGACCAGGAGTCGCGGGAAGTCAG
Seq A exon
GTCTGATGAACTTAGAGCTACATTGCCTCCTTACCGCTGCAGAGCTGCCTGTGGTGGCATCTCTATAAGCTGAGATGGGGAACTGGGAATTAGTGGGTAGCCTAGGCTTCATACTGACTTCAAGACCAGTCCTTGCATACATGGTGAGACCAAAAACCAGCTGCTCTTATAGAAGGAAGACATAGGTTTAGTTCCTAGCACCCAGAGGGTGGCTTACAGTCATCTGTAACTCCAGACCTAAGGAACCTGATGCACCCTTCTGGTCACCTTAGGTACTGCACCATACTTGTGGTATACAGATTCATTCAGACAAGCACTCACACACATAATGAGTCTCAAAAAATAAAATAAAAAGAAGGGAAAAAAGAAAAGCCAGCTGTGACATCTTGTACCTGAAAGTGAGTTGAGCCACCTAGGTGCTGAGACAGGCAAAACAATCATGTTTGAGGCTAGCCTTGGCTACCAAAACCAAACATAAATAAAACACTGGTTAAAATTGAGAGTTGGTTTCTGAGAAGCCTCTTGAGACAGGATGTGCTGGGGTGGGAGGTTCTTGCTGCCTGCCCGATGCTGCCAAGGGGTGGTGTGCTCACTGCCCTCACTGCCTGCCCGATGCTGCCGAGAGGGGGAGGTTCTCACTGCCTACTGAGAGGTTCCTCTGCTGCTCTTTACTTCTAGGGTCTGGCCAGGATGAGTGTGCACTACTAGTGGAGTATTGTAGCTTTTCTTGGAAACTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCTTTTGCTACTATCAGTTATATTAAAAGAAGTTAAAAAGAGAAAATGGGATTAAATTTGGTCTTTTTCTAG
Seq C2 exon
GACCTTTACAACCTGTGAACAGTGACTCCGCTCTGAACAGCAGGCCACTGGAGCCAAGAACTGACACAGACAATTTGGGCACACCTCAGAATACTGGAGGCATGCGCTTGCACGACTTCGTCTCAAAGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000023015-Racgap1:NM_012025:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.918 A=NA C2=0.886
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0013017=C1_1=PU(11.5=13.6)
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:
GCAAATGAATCAATAGTTGCAAAAAC
R:
AAGCGCATGCCTCCAGTATTC
Band lengths:
227-1067
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: