MmuINT0018096 @ mm10
Intron Retention
Gene
ENSMUSG00000039831 | Arhgap29
Description
Rho GTPase activating protein 29 [Source:MGI Symbol;Acc:MGI:2443818]
Coordinates
chr3:122007954-122010058:+
Coord C1 exon
chr3:122007954-122008091
Coord A exon
chr3:122008092-122009825
Coord C2 exon
chr3:122009826-122010058
Length
1734 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
ATGTAATTTTATTTCTTTAGCTT
3' ss Score
6.81
Exon sequences
Seq C1 exon
GGAATTTATCGTGTTTGTGGAAACAAAATAAAAACTGAAAAACTGTGCCAAGCTTTGGAAAATGGGATGCACTTAGTAGACATTTCAGAATTCAGTTCACATGACATCTGTGATGTCTTGAAATTATACCTGCGACAG
Seq A exon
GTAAAGTTTTTATTTTTGTAATTGATCATCATATTTGATACAGTAAAAATGTGATTTTTATTTTGTTTTTTTCAGTTTATAACCTTTGTACATATACATTTTCATTGATATAGACCATACTGATATCTTATGTATAGGTCAAATTACAAATAAGTTAGACATGCAGTTAAAAACATAAAATAATAATAATAAAAACACTGACTTCTCATTTCACAGTAATATTTATAGAATATTCATGAAGTGTTTGAATTAAACTTAACTTGAAAGTGTAGCTTAGCTTTTTAAGGAGAGGCCAGTGTTGAACCCCCCACAAGCAGAGTGTTGTTTGGATCAGTTTGGTTTTGTCTTCCCTGATATTTCAAAATAACAATTTTAGATGGTCAATGGGGAAAAACTTGAGGTGCACGTTTGGGACAATAAGCAGAGCTGTCCTGAAGCTGGGTGTACTAGAACACTGACAGGAATATGGTCAGGAAGTAGGCCATCCTCGATTGTCTCTTTCTTTGCGTAGTTTTGGATCAGTAGTTTGCATTAACATGTTCAAACACCTCTATCTATGGGGTAAAGTGAGTGGCCTCAAGCAGAGGCTGATGGCTAGGGAATAAGAATTTAGTGCAGTGTTGTGAGTCAGGTATAAAAGCTACTTGGGTTGTGTCCAAATGGCGTTCTATTCTTGGGTGAAATTGAGGAGATAGTAGCCAAGAGAGTAGCGCTGGAAGTCCTGAACAGGTCAGTTTCTGCAGTTCCATTGTTCCGTTCTAGATCCCTTTATCTGTTTATATAGCTGTTGTCTTGGGGTTTCTTTTTTACTGGAAGAAAGTATTTCTTCTATCTTTGTTTCTGTCTTTTTCTGTTTTGTTCATGTCTAATCCTTGAACAAAGTGGACCTTACTCATCTGTAAATGTTTTTATTTCCTTCTCTCAATAGAAGACCATAGACAGTAAGTGCCTGTAATGTTGCTTTGAGTGCTTCGCAGCCTGGGCCGGCTCTGTAGTCTCCTCCCCTTTCTCTGCTCATTCTCCTGCTTCTCCTGCTTCTCCTGCTTCTCCTGCAGTACTTTCCAGGAGATTCACTCAGTCTTTTCTCTTCCCACTGCTGGAAACTTCAATATCCTTAGGGCCACTCTCTTTAATTTCTGCAAACTCTGGTGGTCTGCTCCTGCTAGTTTATCTGACGTCATCTGCATTAGTGCATATGTTTTCAATGGTGCTAACATTGGGATTGTAATGAATAGAACTATAAACATAGATGAGCATTTTAAAATCTCTTGTGGAACTTTTAGGTTTAGAGTTTTATTTATTGTCTGTGAGTTTATTGTCTTAATTTATAACACTGACTTCAGATTAACTTAATAGGTGATGCCTATAGCAAACATATACATCTAACCTCATATATATATATATATGTGGATGGATGGTTGCCTGCATGTATATCTGTACCACATGCATGCGTGGTGCCCAGGGAGGCCAGAATCTTACAAATCTTCTAGAACTGGAGTTCCAGACAGTTGTGATCAGCCGTGTGGGTGCTGGGAATGGAACCTGGGTCCTCTAGAAAAGCAGCCAGTGCTCTTAACCACTGAGCCATCTCTCCAGTTCCAATCATACATAGTTAAAGACCTGCTTTAAGTCTTGTTGACCTAGAAGGCATGGTGAATTACTGAGTAGCTGTGAATAACAGTTAACATTAGCAGGGGAAAAGAACATATTCATAATGTAATTTTATTTCTTTAG
Seq C2 exon
CTTCCAGAACCATTTATTTTATTCAGATTGTACAAGGAATTTATAGACCTTGCAAAAGAGATACAACATGTAAATGAAGAACAAGAGGCAAAAAAAGATAGCCCTGAAGACAAGAAACACCCACATGTGAGCATAGAAGTCAACCGCATCCTTCTGAAGAGCAAAGACCTGCTGAGACAGCTGCCAGCGTCACATTTCAACAGCCTCCATTACCTCATAGCACATCTGAGGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039831:ENSMUST00000037958:19
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=0.158
Domain overlap (PFAM):
C1:
PF0062022=RhoGAP=FE(25.7=100)
A:
NA
C2:
PF0062022=RhoGAP=PD(29.8=93.3)
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:
GGAATTTATCGTGTTTGTGGAAAC
R:
AGGCTGTTGAAATGTGACGCT
Band lengths:
344-2078
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