HsaINT0137409 @ hg19
Intron Retention
Gene
ENSG00000091428 | RAPGEF4
Description
Rap guanine nucleotide exchange factor (GEF) 4 [Source:HGNC Symbol;Acc:16626]
Coordinates
chr2:173913328-173917620:+
Coord C1 exon
chr2:173913328-173913382
Coord A exon
chr2:173913383-173916367
Coord C2 exon
chr2:173916368-173917620
Length
2985 bp
Sequences
Splice sites
5' ss Seq
TCAGTAAGT
5' ss Score
9.14
3' ss Seq
GCCCTTTCCTCTTTCAACAGATC
3' ss Score
11.82
Exon sequences
Seq C1 exon
CGCATGATTGCAAATACGGCCAGAACAGTGAGATACTACAGGAGCCAACCCTTCA
Seq A exon
GTAAGTTAAGTGCTGCCACCTCTTACAATGTAGATGTTGGTGATTAAGGTCTTCTTAATGAGGCCATTGAGACACCCTTGGAGCCTGGGAAATATCTGACTGTGTCAGAGACACTTTGGACCATGAATTCCATGAGATAGGGGCCTTGAGTTTAAAGATTTTTTTTGCTGTTTTAAACTAGAACATATTTACATTGTTGTGAAACTAGAAAATCACCATAGGAATATTATTTTGTGAATGAATTTAAAGAGATTTAATTTGCTCTATCCAGTGCAGCTGGAGACAACTAAAGTACGACTGCCAACAAATCCTGCCTCAAACCAACTCTCTTTATGACTCATTGCTCCATGTTGAGAAACTCACATCAGCCCTTGATGACTCAGTTCAGTCAATTATAAACCAGGAAAGATAATATTTATTGTCTTTCAGGGTGTTGCAAGAATGCATTAATGTTTATAGCACATTCGTAAAAGGTCCAAAAACAGGATTTCATATTATATTTCTAGTATTCCCACATGAATTTGAGGTGCTCTTTTAAAATCTGAACATCTATCACAAGAACTGGTATAATACTTTAATATAAAAAAATTACTAATAATAAATAACAATTTTAGTCTGTTGGGAGTTAAGTTGCATCATAGCACCAGATGGTCATACTAGACCAGTGCTACTGTTTCTTCTGGGCTGGGACTTTGGTGGTGGGGGTGGAGCTTTGGCTCCCTCAATCTGGTCTGGAAATGAGAAGGTGAACACTAAAGGTTTTTGCTAAGCTCATTGTATGACTCACTTGAAGAAATTTATCTCATTAACTCAATATGATACTATGACATAGACATGAATCTGAGGCTACCAGTACCGTCTCCTCCAATAAACCGAGTGCTAAGAGACTATGATGTTCTTGTTTTATTAGTCAGAGTTGTTTGTTCTTCCTAGAGCAGGACTGGCTCATGGCCAGATTTGCTAACATGGGACACCAGAACTACTAAATGTTCATTTTTTAATGAATAGGGAGGAAAAATATAAGAAAAATGACATTGATTTGGGGAGCAACTGATTCAAATGACTGTGCCTTCTCTGACTTCCAAAATGTGAATAGTCTTGCAATATCATCAACTATTCTTATGTGGATTCAGCCAGAATTAAAGTGTCTCATGTGTTTTCATCTATTAATTTACGTTGTGTTTAAAGATGTGATCATAAAGCAGTTGTACAAGTGGAAACAAGAATAGATAAGTGACACCAGTTACAACCGGAGTTTATAATCCCAAATCCAGCAGCGGGGATAAAAGGGGACCCTGAAATTATATGCCAAATCGTGTGTGCCTGAGGGGGTTTATAGCCTTAAGAAGGTTTTCAGTGAGGCTCAAGAACCATAAAATAATATGCTTTGTTTTATGAGCTTCTTTGGAAGTAAATCTTGCATTCTTCTATGTCACCTCCTAGAGAAGCCAAGGGGAAAATGTATTTAAAAAGAAAAAACTCCACTGCATTTGTTGAAGTTATCAGTAACTGCTGGTAAACAACAGCTGCTCAGCTCTGAAGTCAACAATCTATAGATAAAGCTATAGGAATAGATTCACAAACACTGTGGGAATGTGTACAATGTAATTACAGTATATTGTACGTGTAGAGTACACTGCCAGTGAGAAGCAGAGGAAATTAAACACAATGTGCTCTGCAGTTCGCTGTGGTATTATTTCTATGTGATAATTATACTGATGAGTTTCTTCTCACAGGGGGCAGGGGCATGTATGTCTTCTCTCTGCTTTTCTGCCTTCAGACCTGCAACACTCCCCTTCACCCCTTGTGCAGATGGCATTCTAATTGTCTTTGGGAGTGCTGTGTGGATCTAGCAGGAGCAACCAGACTGCAGAAGGCAGTGTACTGTGGTGGAAACCCCGGTCAGGAGCCAGGGTCTGGCTCTGCCACTCCGGGTGTCCCCTTAGACCAGAGGCCCTACCCAGTGATGCTTGAAATGGAGGTGGCCCACAGAGGTGTTGGGTCTAAAGAGAGCATTTTTTTCCCTTTTATTTTGAAATAATGTCACCATTTTAAAATTGGGAGAATTCACGAAGAAGAAATCCAGATTTCCCATTTCTTAACAAAAAAAAAAAAAAAAAAGGAAGATCTGGCAACTCTAGGCACAGATTCCCCGTGGCAGCAACATGCAGAAGCCAGGTCATCACTTCCAGAGGGACCTGTGTTTCCAGTTCACCACCTTCTGGTCTGGCTTTCCTTATTCATGTATGTTCCCTGCGAGGGCTGAGTGCATTGGCTCATCATTCAGCCCTGATCTTCATTAAATTGGTTAACCTCAGTTGCTCACATGCTTGGGATGTGCATCAGAATAGAATGGTAGCTGAGTTTTCAGAGCAGATAGCATTAAAGAATCAAACGTCTAGCAGAAGTCATAACTTCAGCCTGTGAGTTGGGTTTTTTCTGAATATGGACAGTCTCTAAGAACATACAGTCGGTATAGTAATGCTGTATACTGTGTGCAAGTAAAGAGGGGAGTCAGGACTCTGTAGTCTCACTGGCTTGCTTCAGTTTGGCCCAGATGTTAAGCGCTTTTGTGAGGGGCTAATAAAAACTGTCTTTTGACATTAGTCTTCATCTGGATCAAAGGAGGCAGAGACACAGAGTGTGAGACACAGAGACCTCTGGAAAGGGAAACAATTTTAATCTATACCCAGGGGCTATCAGACACATGCTTCCCTTTTAATTTGGTGCCATTTTTTTTTTACAACGTGCAATTCAAAGGAGAATGATCAAAAGAGGTGATTCCAGGGAAGAAAAGAAAATTGGAGGGTAGGAAGGAGGAGATGGAACAACCAAGTGGAAACGTTTCAATGATTGTGGTGTGTTGAAAGGTCTTGAGGGAACCCAGGAACCTATGATAAATGTAATAAATAATTGGAGAAGTAAGATTGTATCTTATATACATATATTACACAATGCCAATTCTGCCCTTTCCTCTTTCAACAG
Seq C2 exon
ATCCTGATGCAGCTCAAGCTAATAAGAACCATCAGGATGTCCGGAGTTATGTACGGCAATTAAATGTGATTGACAACCAGAGAACTTTATCACAGATGTCACACAGATTAGAGCCTCGTCGACCATAGACATTTCAAATGCCCAAAGCAACAGTTTGTCTCCAGTCCACAATCTTTCAAAAATGCCATTTATGCTACTACTGACTGTATTGCCACTAGAGAATTCTACAAAACAAGCAAAAACACATCCTGAGACACCTCAGGGCTGCATTCAGCTTACCAGCTACCTAGCAAGAGAAGGAATTATTTGACATGCCTAAAGCTTACACACTCTAGCTTAGGAATCCCCAGTTTGTGGCTACCCTGTTTCATTTCCACTTGTGCCATCTTCTTTGCTGAAGTGTTGAATAAGGCCCACGTGAAGAGTTTGGTAGAAATAGCCTTGTCAAGAGAACTAGCAAGCCCCTGACATTTTTTTCTAAGAGTGTTTATGGGATGAGATGTGCTACAAATGGGATAGATTTGGATAAAATTTTAACTCAACATCTTGATTTGGAGCCTGGGGTTTCGGGAAGGTGTTGAGGAATCTATAGAAGTCCAAATTATAGGTTGTATTCTTCCATCTTCATTGTCTTACCTCTGAAGGAATAGAACCTGACCACATTATTATGAAACATTATGGCTGTTTATGTAATTTAGGGAGGACTGGTCTGTAATTTCTGAATGTATATAGAATAATATTTATGTTTACAATGTAACTTTTCAAAATTTACAAATCAGGATTATATACATAAGAATTCCACTAAGAAATGCCAAGATTCTTAAATTTGCCAGCGTTAAAGTAGAAAATAACATTTCAGAAGAGCACAATATGCATAAAACATTTTTCAAAATTGAAATATTTTCCTGGGCATTAAAAACCTTTACTATTGGCTACAAATTTATTGTACCTGATGAAAACATATTTTCTGGACTTAAATGTTATTACAAATATCTTAATTTTCAGTAATTGTTTTGCACTTTCAAAGATTGTAAATAGTTCATTCAATCAATGGTATGGAGTTATTTATTTGCTACATAATAGATACTGTGCCAAATAATTACTTTTTATTTATTTTATTTAGTACGTAATTTTGAAGTACATTTTTTCCTGTTTTCACAATTAGACTACATTTAATGTGTAGGAATTGTATGTATGTATATCTTCTGTAAATAACATCTAGTATCTTCACTAAATATAATTGTCGACAAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000091428-RAPGEF4:NM_007023:30
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.039 A=NA C2=0.565
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=FE(10.7=100)
A:
NA
C2:
PF0061714=RasGEF=PD(20.2=79.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
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
- 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)