HsaINT0137423 @ hg19
Intron Retention
Gene
ENSG00000136237 | RAPGEF5
Description
Rap guanine nucleotide exchange factor (GEF) 5 [Source:HGNC Symbol;Acc:16862]
Coordinates
chr7:22194073-22196506:-
Coord C1 exon
chr7:22196428-22196506
Coord A exon
chr7:22194223-22196427
Coord C2 exon
chr7:22194073-22194222
Length
2205 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
AATTCTTTTCACTTGTGCAGTTT
3' ss Score
7.42
Exon sequences
Seq C1 exon
AATAAAGCCCTTTTCCACCAATTCAGTCTTAAGGAGAACTGGCTCCAGCATAGAGGAACTGTGACTGAAACGGAGGAAA
Seq A exon
GTGAGTATGGTTTGAAGTGAGGGTTTGGGGGTGGGCAGCAGTTAGCCACCATTTTTCTCCTACATTGGCATATCAGCCTGACTAACCTTCATTTCCAGCTGTCACCCCTCAGATAAGCACGTTAGCCTCAAACAGCATGGTTTTTCTTTTCTTTATTTGAGCATTATGGTTTTCTTAGATCACATAATACTGTCCCAAGCACCAAGGATACTTATAATTTGGGAAGCAAGGAAAGGAGACAATGCCTAGAGCCTCCTTGCATTCTTGAGAAGAGGTAAAAATGAACGGGAGACTCAGCCTTTTCCTCCTAGAACCATCTCCTCCCTGCCTTCATCAGCCCATTGTCTATGACTAACTGGAAGGATCACCAAAGTCAATGTGCAGATTTGGGCTGAGTCAGTCCATGACTCAGTCCACGAGAAGAAACTCCTGTGGAGAGAAGGCTGTACGGTAGAAGCTCCTGCAAGGCCAGGCTGTGTGGGCAGTGCTGCCCATCTACTGTGTCCTCAGTCACTGCTTATTTGCGTGAAATAAGAAATATTACCAGTGGTTTTCTCCTTTTAGATAAAGATTGAGTCAAGCACAGAGCTGGAAAACACAGCAAATTAAAATTTTAATGCAATTATAACTCACAGACTCTCTCTTTTGCCTCATCTTTCTTCATATGCTGAAATTCTGAGTGTGATCATTTAATATTTGCCCAATTTCTGGAACTTGTAAAAGAAGTCACAAGGATGCTTATTACATTAGATAGTGTTTGCATATAATGCTGCTGATACATGGTTCTGTTGGCTCATATTAAGTGTCATCCGTACCAAGTGAAAGAGAAAATAAAATTATCTAACTTCCTAATTCATTCGTTGCTGACCTTCCTTGCCCATTTGTCTTAAAGTTTCATCGTGTAGTTTTCCAAGCTGAGCTGCAAAGAGGCAAAGTATTTCGAGGCCCCCAGACTCTTTTTATCAGTTTATTTAGCAAGATGTAAACTTACCCTGCATATAGTGGTTTATAGACCAGATTTTGCCTTGCTTAAAAATTCCATCTTTCTATGGAAGGAGGAAAGCCTTTTTCTCTCTCACTAGTCTATTGGCAAAATACAAAACAACTATTTGTTACATGCTGTTGTTTTAGTGACGTACCCAACCAAACCAAATATGTCAAGTGTCTCCTGGTGGTGTGTTTACTTTGAGGTTCTATACATATAAACTCATAGTTAGACTTTTGCTTCATTTGTATTTCTATGAAAACATTCCTGGGTTTATTTTTGTGGTGCCAATTAAACTGCATATAAAATTTCTCCAGAAGCTTCACTCTCAATTTTTTTGCAACACCAAAGAGTAGAATATCTAAGTATATTATTGTCCTTCTGTCTATTTGAAAGAAGCTAGTGCATTTTATACATTTATAGTAGCTGATATAAGAGGTAATGTGTCAGTTACTTCCATTGCTATTAAAACAGCTTCTGCTATTAATATCATAAAGAAAACATTTTTCAGGACCCATTCACCCTGATAGTGATAATGTCCTAGTAATAATTATTAGCACCACAGACAATAAAAAGGAAATTAAAAAGACTAGAAATGTGACCTCCATTTGGAAACTAAATTCATCACTACCTTGATGGGAGAAATGGAGTCATTCTTAAATGACTGAGAAAGCTGAACTCAAAAACCAAGGCAGATGACAGATTTTTAGATAAGCTTATGAGAATTCTAATAGCAAAATACGGTGTTCTTGATTGGGCCACTGAGATTGTCCTGAAATGGAGTGTAAAGGAAAAATTTATGAATTAGACACTTTAATATGCAGCTTTGGGAGATCTCAGCAACTGTCAAAGAAGGGATTTAAAAATACAGTCTGTGTACCACAGTTTCCACTGTATTATGGTCAGATGGTTTCTACAGTGAGTACACACTTGCGTGACTCGGGTCTCTCATTACATAATGAAAAGATTAAATACTACTTGTGCTTGTTGGCTGGCTTTACAACATCTGAGTTTCATGTGTTTGCAAGCACACATTTATAGACGTATACCCTCAGGTGCTCATGTACATATATAAAAAATCTAACTCTGTATGTGTTATACTGAAGAGAATAGCCAGGTGGGTTGATTTAGAAAAGTTGATCAAGGTGCCTTGATTTGGAAAAGTCTATACCTCGTGACCACTGTTCTCTGTTTCCAAACAATTCTTTTCACTTGTGCAG
Seq C2 exon
TTTTCTGCCACGTGTATATAACAGAGCACTCCTATGTCAGTGTGAAGGCAAAAGTTTCCAGTATAGCCCAAGAGATCCTAAAAGTCGTGGCAGAAAAGATCCAGTATGCAGAAGAGGATCTGGCTCTGGTGGCCATCACATTCTCTGGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136237-RAPGEF5:NM_012294:16
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0078818=RA=PU(2.5=7.4)
A:
NA
C2:
PF0078818=RA=FE(62.5=100)
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:
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
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)