HsaINT0137429 @ hg19
Intron Retention
Gene
ENSG00000136237 | RAPGEF5
Description
Rap guanine nucleotide exchange factor (GEF) 5 [Source:HGNC Symbol;Acc:16862]
Coordinates
chr7:22176551-22179733:-
Coord C1 exon
chr7:22179643-22179733
Coord A exon
chr7:22176602-22179642
Coord C2 exon
chr7:22176551-22176601
Length
3041 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
TGTTTGTGTTTGTTTTTTAGAAA
3' ss Score
10.55
Exon sequences
Seq C1 exon
CTGCAAAGCCCAGAGAAACCTGAATTCTTTCTTTGCCATTGTGATGGGTCTCAACACTGCTTCTGTCAGTCGACTGTCGCAGACCTGGGAG
Seq A exon
GTGAGCCTTGGAGTCCCATGGTGAGGGGCACATAAAATGGAAATAAAGTAATTTACATGGATTAAATGAGATAAGTACTACTAAACTAAAAATGTTTGAAAGTCATATGTCAAGGTGGTAGGGATCTTTTTGATCAAATGGTCTTTAAACGGTTGTATAATGTGTCTGAACTAGATAAAAATGGTAACGTGCTCCCCAGCTAGAATTAGTCTTCCCCTCTGTCCTGCCTGATAGTGCAGTGCTCGTTCCAGGCTGGTCCCCACAGTCTCCCCGCATGATGATGCGTGCTCAGAAGTGCGTTTGCTGTGATGCTAATGAGTTTAAGCTTCGAGGCCTCTCACTTGCAGGGCCCCTGGCAATGTGTTCACATGGATGATGTATATTTTTGTAAAATTTGCGAAAGCAAAGTAATTTTAATATTCTTTTTCTTAAAGAGGATCCACAAAACGTTCTAAAGTTTCAGACCTCCCACTTCCTGGCTCTGCACGCCGAAGGCTGTTTGGGTTCTGAGATGCAGAGGCCCACTCAAGTTCGCACAAGGTCTGACGTGTGGACTGCGACATTCATGTGGGAAGACCTGAAACTGGGGATACCCCTAAACTTAGCCAGACACAGGCGCAGGACTCTGCCTCACTCATGGTCCCCTCACCGTCCTTCCTTGGGCTTTTGTTTCCTTCGCTCTCCTTTCCTTCCTGACTGGCTACCTCCCTATGTACCACTTCTCCCCTCATCATTGCTCTTTAAGCATCATGCCTCTGCCTCTAGCCTGCGTGTGGCTCACTGTGGTCTCCTCAGCCTCCCTCACAGTCCTCTCAGATTTAGTTCCTATCACTGACTGTGCCATTCTCTTCATGGTTCCCAACTCAAACTCCTACAAGAGAAAAGCTGATAGGCCAGCTATCTTTTTCTCGGAATAGGTCTCTGGGCAACCTGTGGATTCGCTTTCTTTCAGTCAGGGGTCATACCCTGAAGGAATGCACTGTGCTGACCCAAGGGTCAGAGTCAGTCCTCCTTAAAGGGGCCCAAAAGAAAAGAAATGAAAGCCCCGCCTGCTCTGCTTAAGCAAACAAGACCTTCACACACAAAGCAAGATGAAAGACATGGGTGACAGATGCCACGATTCATTAGAGTAGGAGGAAAACAAATGGCTTGGCAAGGGTCAGTGGGGAGCGAATTTGAATTAAACCTTGAATGAAACTGATTTGGAAAAATTGAGAGGAGAAATAACTCAATTAGATTCAACCAGCTTATGTTTAATCTGCGCATTGACTGCCTGCTATGTGCAGAGCACTGCATCAGTGCCATAGCAGACAGGAGATGGCTACATGAGAACTGAGCATGCCTGTGATGACAGAAGTCTTGGACCAGGGCAGAGCAAGTGGAGGGACTCATTCTGCCTCTGGGTAGCTGAGAAAACTCGAATGAGAAGCCTCAAGCTGCAGGGCCTTCGAGGTCCAGCTGAGAGTTACTGGAGTGTGGGGATGGGCATCTCAGGTAGAGGTGACCACAGGATCTCCAGGTCTGGTGACTGGATGAATGGAAAGTGATCACACTTCCCAAATAGATAATACAGGAAAAGAAACAGATCAGAGGTCAGCAAACTGCTTTGGTAAAGGGCCAGCGAGGAAAAATGTTTAGGTTGTGCAGGCCACATGGTCTCTGTTGCAGCTGCTCAACTCTGCCATTGGAGTGAAAGAGCAGCTGTAGTACGTGCCTGAATGAAGGGGCGTGGCAGCAATCCAATAAAACTTGACCTCCTAAAAGTAGCTCATGGCTAGATTTGTTCCATGGCTGATCTCTGGAGTAGATCACTTAGTTCGACTTCGGACATGTTGGGTTTGAGGTGCCACTGGGACATTTGTGAGGGATGTCCCACAGACTAAGGTAGGCAGCTTAAAAGAAAGATTGGAATCAGTTGCAAATATCTCCATTTTGTGTCTTCTCATTTAATTGGTCCTCTGTTTGTTGGGGTGTGTGTGTGCGTGCGTGCGTGTGTGTGTGTGTGTGTGTGTGTGTGTAGTTTCCAAACAGATTAAACTACCTGTTTGCTGTGATAAACTGAGTCCATATTCAAAATTACCACATCGAAAAAAATCTATCTCTAAATAATGTAAAAGTCTAATTATTGTAGGAGTTGCCTCATTGTTTTGATTCCTTTTAGAAACAAAAAATCCCAGAAATATCTTCTTATACTTTGTTGTTAGTGTTAATAGCTGGCATTTGTTAAGTACCAGCCAAGGACCGTGTACTTTTCATGAGTGGTCTCTACATCCTCAGCTGAAGAAACAGATCCGAGAGCTTGCTGACACACCAAACCACATAGCTAGAAAGGGCAGAGTCAGAGTTCAAACTCAGGCTGCCTTTAAATATGTGCTGTTTACCACAAAAGATTACTAAGTCAATATTGAAAGGCACCCAATTTTTTACTTAGCCATGTTAAAAGCAGGCTGGAACATTCCAGGCCCTTCTTCCTTAGGCCTGAATTTTTATTTGGGAGGATGGCCTATGTTTCCATCCCCTGTCACTTTGCATGGTACCTGTTATGGTTGAGCTCTTCAATTCATTGATTCCACTCATTAAAGTGCAGGCTTCGTCACTTAAGGTCTTCCTGGCCCTTCACTATTTAGCCCAATGCTGTGAAATAAAATTTCATCATCTATGCTAAAAATGTCAGCCAACATAATTGTTTCCCACTCAGGAAGACTATTAAGAAGATGAGAGCATTTGTCAAAGGTAGGGTATGGAACTGAAATCTAAGTTTTTATTAAATGACCACCAGTATGTGGAATGTCTAACCAACTAGATTCCTGAATCATGTGGCTGTTATTTTAAGCTGTTTTAAGCAGCATTCCTAAGGAAGATCACATTAAAGGGATGATGAAAATTGCATAATGAGAAGCAATCAGGATTGAACAGATGATAGAGGTATTTATGTTCAGAAATGTGACACAGATAAACAACGTAATGAAAACTCCCTTCGATGCCTCTGAAAATAACCAACTTCTGTGACCTTCTGTTTTTTGTTTGTGTTTGTTTTTTAG
Seq C2 exon
AAAATCCCTGGGAAGTTTAAGAAACTTTTCTCTGAACTTGAAAGTTTAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136237-RAPGEF5:NM_012294:21
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:
PF0061714=RasGEF=FE(16.2=100)
A:
NA
C2:
PF0061714=RasGEF=FE(8.6=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)