HsaINT0137316 @ hg19
Intron Retention
Gene
ENSG00000107263 | RAPGEF1
Description
Rap guanine nucleotide exchange factor (GEF) 1 [Source:HGNC Symbol;Acc:4568]
Coordinates
chr9:134467484-134471760:-
Coord C1 exon
chr9:134471685-134471760
Coord A exon
chr9:134467571-134471684
Coord C2 exon
chr9:134467484-134467570
Length
4114 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGG
5' ss Score
8.76
3' ss Seq
GCATTGTTTTTTCCCTCTAGATT
3' ss Score
10.85
Exon sequences
Seq C1 exon
GGTGATGACGGGCCGGACGTCCGCGGAGGATCTGGGGACATCTTACTGGTCCATGCTACTGAGACTGACAGGAAAG
Seq A exon
GTAGGGTGTCAGTGAGCTCACTAGATTGGGGCTGGTCCTGCCCCGGGTGCCACTCGGCCTCCCACCGCTATCCTGTCCCCTCCTGGCAGCCACAGCCCTGAGCAGGTCTGATCAGCAGTCCTGGTGCGCCTGAGTCAGAGCAGGGAGAGCCCACCTTGGAAGACAAGTAGATCATGTTCAACTCCAGGCGTGCGTGGCATCTGTCCTCCGCTGGTACAAGGTAGTGACCCCAGGGCCTCCAGGGTCCTTGAGGGGCTCAGCGCATACTAAGCGCACCACAGACAGCGCCTTGAGTGATGGCATGTCACCCAGTAGTACTAAACTTAAGATAACATGCAGGTACCTTTTGATTCCTTTCCTGACTGCTGAGTCACTCTATTGTTGCAGACCATTAGACCGGACTTCACTCACATACTCCACGAGGAAATTCTTGAAGGTTTGTTCTGTCCAGGAACCTTCAATTCTGTAGCAGTGGCCTCAGTTTCACAGCACACAGCTGCCCCACCCTACCACGCATTCAGTGTGCTGATTGAGAGGGCTGGAAAAGCAGGGACCGTCCCCTAATCCCTAAAACGTCTTGTTGGGTGGACTCTGCTAGCAAAGTCATTCCCAGTCATGCTCTGGAAAGGAGGTGCTAGTGACCTGATGGGGCATGGCCACAGCACCCTTCACTGCCTGCCCTCAAGGGGCCAGCACCACCTGGCCGGCCAGTCTCTCCACACGCTGCTTCTCTTTTTACGTTTAAAAAAATGATTTAAAAGATGATGTCAGAGCAATGGTGAAGTAAATTGTGGAGGGAATGAAAACACCCCCACCTTGAAATCCTAGCCCAACCCGTTTCATTTCTGTAAGGGACTCTGTCCCTGTGTTTCCTCAGCACGTTTCCCAAAACATGTGACCCAGAGTGACTCGGGGAATTTCTGAATTATGGAAGTAGTACTAAAAAATATTTACATTGCAGAAAATTAGAGAAAAAGAAGAGATGGCTCCCACAAACTCACCGCAGCCACTGCTCCGCCCTCCCCTTCACTGTTCCCTCACCCTTTGTTTGTTCTGACCAGGGCAGGGCCCAGACCTGGCGATGCTGCATCCTAGCCCCAGCTGTGCCATGACAGGCTCAGAGGGCCCCTGGGCAGTCCCCGGGCTTCTCGGCCTGAGCCGACTCCACTTGTTGAAGGGGTGAACGGTGCCTGTTGTTGTGTGGATTACGTGAGGGAGTGTGAAACCTGCCCCGCATGTCAGCGGTGCTGGGGGCGTGATCAGCAGCATCCTGAGCGCCGAGTGCAGCCCTTGCTTGGCTTCTCTGCAGTGAATCCCCCTCCCTGCCTGACATAGGGGGCTCCATACTCAGCCAGGCATGGGAGCGACTTTCATTTCCTTTTTGTCCACAGCGAGGGGCTGAAATGGGAGCTGGCTTCAGACCTCGGCTCCAAAGGGTGAACTCCACTGTCCTGTCGGGTACAGCCAGCTGTGGCCAAGGCTGGAGGGGTCCCTGAGACAGGACAGCCAAGAGGCTTCTGGCTTTTGCTGGCTGGACCTGCTGAGAGGACGCTCCGTGCCGGTGGGAGCTTTGCCTGATTTTACTAGCAGAAGGGTTGGAGGCTCCCCAGAACCAAAGTTTTACGTAGGAAGTATTACTGAGGCAGAAGCCATGGCTCCACTGGGAGGGTGAAGCACCCTGTGGCAGGTAACAAAGCAAGCTCCTTGGGCAGGTGCATCCTGCAAGCCAGAGACTGCACCAGCATCACGAGCAGCTGGGAGCCCCGTGGCTCAGGCCCGTGGAGCCCAGCCTGCCAAGCAGGGCTTGGCAGGGAGAGGCCGTGTGGGGGTGCTTTGTGGTTGCACGGCTCTGCTCTCAGGTGTCAGGACCTGCATGGGAGAAGGTCAGGTCAGCCTTGGCCTCAGGCCTCAGCTTAGATCCTGTCTATCCCTTGACAACTGTGTGCCAAGCCTGTCACTTAGCCCCGGAGCTTCCGATTCCTTAGGAGGAAAATGAGGGACAATTTCGGGGCCTTTTAGGGCTGTCTCAAAGACCAGGTGAGCCAGGGCGCACAGAGTGCTCAGGACCGCATCGAGAGTCCTGTGATCTCTAGAGGGGTGGCACAGCACTGCCCGTCCCAGAAGCCAGGCGCTGTCCCATCTGCCATAATCCAGGGCACAGCAGATGGGGGAGGGCTCTGGAATTGGGCAGACATGGGCGCCGACCCCGCCACATTGCTTGCGGGTGGTGTGGCCTCGTGCCTGGGCTCCTCCTCTCTCGGTAGGGTAACAGGACTCTGTCCTTGTGGGATTGCTCTGGGCATTGAAGGATGTGGCATATGTTCAAGGCATGGCCCAGTGCTCACCAGCGAGTCCCACGAAGTTGTCATGGCTACTGGCAATGATGCACCCGCAAAGGCCAGTTGACTTGGGCCCCTTCTTCCAGAAGCAGGTATGGGTCTATGCTGGTGCCATCTCTGCTTCCTTCCCCAAACTCTTTGAACAAAAATCCAAGCTTGACAGTGAACTGGGTGGGTGTGGGGGCCGAGGAATGAGCCTGAGCACAGTGCGGATGGGCCCTGCTGTGATTCCCAGCCCGGAGCCTCCTTCACCTGCCAGCCCCACCCCACGCAGCCCCCAGTGCAAGAGCAGGCGTGGGTTTTCCTCTCGTTTGATGCAAGAGGGGATGGGGCAAGGGTGGGGGCAGGAGCCAAGCCAGCATGACTCAGCTGGAGATGTGGGTTCCTCGAGATTCCTCTACCCAGCAGCTCGGGAATGAGGGAGAAGGTGGGAGCAGGTGGTCTATGTCCAGAGCACAAGATTTAAGCAGTGCGTGTTTGCACCCAGCCTCACAGTGAGAAGCACAGCTGCGGAGCCTCCTTGGGCCTCACACCTCAGCAGGCACGGGGGGTGGCTGCAGGGAGTGAGTCTGGCCACCCGTTGGCTCAGGCAGTGTCCTACATTTTAAAATTCCACTTCATTCTGTAATATCAGAGACAGCACAGTTGAGAAGGTGTCACCACAGCAAATAAATAGGGCTGTTGTAATTCTGGAAAGTCTGGGAGTCCCTGACTGGTACCAGCCCCCTCTAAGAGGAGGCAGGCATGGAGAGGTGAGGGGTAAGCTGGAGCTGCCAGCCCACACCTGCCCAGTGGCTGGCACCATGCCTCTCCTTGGTACCCGGCCCAAGCCGTGCCTCTTCAGCCTATCCCTTAGGACCCAAAACGTGGAATTTCCCCGGATTTTTCTGATTGGACCCTACCATCTAAAAGTACTGACCAGGCACGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCAAGCTGAGTGAATCACTTGAGGCCAAGAGTTTGAGACTAGCCTGGCCAACATGGTGAAACCTTGTCTGTATTAAAATCAGCCAGGCGTAGTGGCGCGTGCCTGTGGTCCCAGCTACTCGGGAGGCTTGAGGCAGGAGAATCACTTGAACCCAGGAGGCAGAGGTGGCAGTGAACCAAGATCGCACCACTGCACTCCAGCCTGAGTGATAGAGTGAGACCCTGTCTCGAAAATAATAATCATAATAAAAATTTAAAAATAAAAGTAAAGCCTAGGGTTTCATTTCAGGATCCTGCTGACGGGTTTGAACAGACGATTTTCTTTGTTCCCATGATGGCTGAGACCCTCTGAAGCATAAAGCCTTAGGACAGGCAGAGCCTCTCAGAGTCTAATCCAGGGCTGGCTCCTACCTGGAACAGGCATGCCACCGGGTTTTGATGCCTAGGGCAGGCGTCACTCGTCAGCCTAAGTGCCCTTTTCCGCTGGGACCAGAGTTGGCCTCAGCTCCCACAGCACGGTTCTCCAGGCAGCACCATCATCGGTAGAAAGTGCCCATGAGATAAAACCCTTTCCTGTTTCCCCTCTCTGATCTGCCGTTTCCTTTGAGAGATGGACAGAGAGGACGTGTGACTTCTCTGGGACATGCAGGCGGAGACACCAGAGGGGGTTCCCAAGCCCTCGGCTCCCTCGCCCATCCCACTCCCCGTGCCATCTCCCCTGCCTCTCTCAGAGCAAGGACTCAAATCCACCCTGGCTACCACCCCCCAGCACTCTGCACCCAGACAAGCAGTTTGCATTGTTTTTTCCCTCTAG
Seq C2 exon
ATTTGGTGTTGTACTGCGAGGCATTCCTGACCACCTACAGGACCTTCATCTCCCCAGAGGAGCTCATCAAGAAGCTGCAGTACAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000107263-RAPGEF1:NM_005312:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.542 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0061815=RasGEF_N=PU(20.0=76.9)
A:
NA
C2:
PF0061815=RasGEF_N=FE(28.0=100)
Main Inclusion Isoform:
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
- 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)