MmuINT0131778 @ mm10
Intron Retention
Gene
ENSMUSG00000041992 | Rapgef5
Description
Rap guanine nucleotide exchange factor (GEF) 5 [Source:MGI Symbol;Acc:MGI:2444365]
Coordinates
chr12:117753422-117756978:+
Coord C1 exon
chr12:117753422-117753476
Coord A exon
chr12:117753477-117755962
Coord C2 exon
chr12:117755963-117756978
Length
2486 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
TTTTCCCTCTGAAAAAATAGGAA
3' ss Score
5.11
Exon sequences
Seq C1 exon
CACATGATTGCAGACACTGTCCGAACCCTGAGACACTGCAGGACTAACCAGTTTG
Seq A exon
GTGAGTAGTTGGACTTGGGGCGCAATGGCTTTGAAGTGATGTTGACTGTAAACATTTAAGGAGTACTTGGTGGACCCAAACTTCGACTTCTACTACCCAGCCCCTCAGATTTACTTCTGAGTTTAGCCCCTGCTTCTAGTTTTCTTGTTTGGATAGGAATACAGTTCCTTAGGTTCCTGAAATATCCTTCCATTGTGTCCTTCCCTTCAACTCAAATGTCCTATCTACAGCTGAGCTGTCCTGCCTGCCAGCTGAGAAAGTATGTTTTTCTTAGCAGTTCTATAGAGTCCTCTCTGAGACATATACAAGGATATTCTTCCCATTTTGAATCTCAGGTGTATCTACCCTGCCTTTAAATGGAGTTAGCATTTGCAGGAAGGGAGGAAATTCCCTTTACTGAGTTGCAGGAGCTTTCACCCAAACCACTGAAGTCCTGCCTTGGTCCTAGTAGCTAGGCATCCTTAATCCTGTACGTGCTGAGCCCAGAACCAAGGCTCAGAGAGGCTACTCACCCTTTCCTAGTCCATTGCTTTGCCCTGTGCTGACTGTATACATAGAAATAGTAATTAAGAGAGAGGGGGAAGGGGGGAGGGCTAGAGAGATATCTCCTTTGGAAGTTAAGAGTGCTTGCTACACTTGTAAAAACCAGGGTTCAGTTCTCAGCAACCATGTGACAGCTCACAGCCCTCCACGTCCAGGGGATTTGACACCCCGTCTTATGTCTGAAGGCTCCTCCGTGCATACAGAGGACATACATACACTTAGGCTCACATGAAATAAAATAAAGAAATAAAGCTCAATGATTACAAATCAAAGATGAGCAACCTGGTGTTAAGTAGAACTTAAGTAATACATCTTTGTTGCATCTAAAAAATGTATATAGAGAATCAGAGCCTCTCCCACCAAAGAAAGTACTCCTAACTGTTTGGTATGCATTCTTTAAATGCTTTTTTGATAGTGCTCTGCCCATAGCTATCTATAGTATCCAATTAGGGGCTGAACCTCCTATATGTGTTATAAAGTAGAAAATGAGAATTACAAAATACAGAACCTGATAATATAAATATTCATTTTATTTAATACCACTTGGTAAATCTTATGTAAATTTCCATTGAGTCCTCAAGTACAATGCAGTCATAATAGAAAGGGTGATACTGTTGCCACAAAGAATCCTTCAGATGTGTTATTGACAAGTATTTGGCCATATTTCTCTCATCAGTCTTTGCTTCCAAAGAGATCACCAGATATTCAGCTAATTCTAAAGCCACCATTCTGATCCATCAATGGTCTGTTCCCAGTATGGGGAGGAGGGTCCTACTGGCTTGGCTTGAACCTACCACTCACCGGAAAGACTGCACAGCCCAAAACAAAAGAGAAACTTAGCTGTCCACGGTGTATATTCTTAACTTGGATTGTAACTAAATTATCTGCCTTGCTTTTAACCATTTCTTTCGATGAGCCTCATTAGCCAACGTCAATGTGTGGGATAAAAGAAGAAAATGTCACTCAAAACAGTTATGTCCTATGAAGTGCTGCACAAGGGTCGGCTGCGATTGCCAGGACTGTTCATCATGATGTCTTTCGAATGCTTGCTAATGACAAACTTATCTGTATAGCCAGCTAGTATTTACCAAACTAAAAGCACTTTTATAATGTCTTCCAGAAAAGTATTCTAGAACAATAGTCTATCAGTCATGGTTAAAATTCTGAGCTTCCAGTGTTTACTGCTGAGACCAGGAAGTCCAAGAGTTACAAGCTAGCTATGACAGATGCCCCTTGAATTATTTTTCTTGTTAAATATGTTCTTCATAGAAGAGGGAGAAACTGCTTTTCCCAGAAATGCCGCTGGGCCCGCTTCCTGTAAGACTCTGTGAACCCAGTCCTTATGAAAGCTGTCCCTAGCATGGCATGACCGTAGTCTCTTATGGCCTTTGGCTTTTTATCTTCTTGGATTGCTTTATCCTCCTGGGTACACTGTAGCCCACATGCATACTTAGAGAAACTGCTTTTTCTACACCCATTCCTAAGAATCTATTCTATGGTATATGTTCCTTCTTTTTCCTCTAAATAATTAGGACACAGAAGTGTACTAGATCGAAAATAAAAATAAACAGATGAGTAAATGATTTAGTAAGCTATTGTGCTCAGAGGCTAATGTCTCACAATCTCAAGCTGATGTAATACATTAAACCAGGGCATGGGAACTTTGGCTCAGGAACCATCGGAGCCTGGTTTCGAATCCTGGCTCTGACATTTACTTATGTGACTTTGGAGTTTCCTCATCTGTAAAGGGATAACAGTGTGGCTTCTGAATAGTCTCTCCAGTAAATATGAGTCAGCCTGCATGAGCTGAGCTGCAGTTGTTTATCTTGAGACAAGGGAGAGCCATTCTAGAGCTAACGTACTCTAAACCATCATTACTGCATTTAAGAGTAACACCTCTGCTCCTATGACACTCATTGTCCATTTTCCCTCTGAAAAAATAG
Seq C2 exon
GAAGTGACGTGTCTCCAAAGGAGCAGCAAGAGCTGAAGTCCTATGTCAACCACCTGTATGTCATCGACAGCCAGCAAGCCCTGTTCGAGCTCTCTCACAGGCTGGAGCCTCGAGCCTGAGCTGTGCCAATGCATCTGCCCTGCATCTGCAACTCTTAGAGCAAGCAAAGGCCTCCGTTCAGCATGTTGCTTCCTGTAATAAAAGAGGTTGCTGAGTTTTATCAGCATACCATGAGACAAGTGCAGGAAAGCCAGCCAAAGCACGTTCAGGAAGTGATGTCAGCCACCAGAGGCGAGAGAGCTCCCCCCACTGCTGTCAGGGAGAAGACAGGAGTCAGAGCATCCTTGGAACAGGGTCTTCCTTATGATGACGATTTCATTCCAGTCCAAGTTTCAGCTTATGAGGTGCCAGCATTAGGAGGTGATTGCTCATATAGCAAGAAGGACTGTCACTCTGCCTGGTCACCTTACTGCTGATTGGCTGTCTGCTCACCTTATTGCCAATTGGCTGTTAAGAGACTGTGGACAGCAAGGGCAACTCCAGATGTTCCAGAAAGAGGAGAGGCCTCTGTTGCTATAAACTTAACATCACCCTGGAGGGCATGTCCTTCTGTGCAAATAAGAAATGCGCGGCACACACTTCTTTGCATCCACAATCATTTGCCAATGTATATGCAGATGAACTAGTTTCTGTACCACTGATGTACTTCTGTAAGCAAGGTAGACTGGGTTTCTCATCCAATAAGGAGCTTGGCATTGTTCAGTTTCTATGAACTGTCTTTACATATATTGTTGTTGTTGCTGAGTGCAGTTTTCAGAAAAACACAGGACCTGGATCGTGAGCGCTCAGTGTTAGTTTACTGGGGTGACAGAATTTCCAGTGTCTGCATTCTGGTATCTGATGGAGTCTTGGTGTCTGACATTACTCCTCCAAGTTCCCTGCCTACAGGATGCAGAACATCAACCCATGAGGGAGGGTGAGTGAAGCCAAGTATATGAAGCTTAACAGTTAGCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041992:ENSMUST00000109691:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.053 A=NA C2=0.077
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=PD(0.5=5.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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