HsaINT0137369 @ hg38
Intron Retention
Gene
ENSG00000079337 | RAPGEF3
Description
Rap guanine nucleotide exchange factor 3 [Source:HGNC Symbol;Acc:HGNC:16629]
Coordinates
chr12:47740642-47741040:-
Coord C1 exon
chr12:47740915-47741040
Coord A exon
chr12:47740824-47740914
Coord C2 exon
chr12:47740642-47740823
Length
91 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
CTCCTGCTGACCCCACCCAGGTG
3' ss Score
6.48
Exon sequences
Seq C1 exon
ATCCCACACCCTGACCAGCTGGGGCCCACTGTGGGCTCTGCTGAGGGGCTGGACCTGGTGAGTGCCAAGGACCTGGCAGGCCAGCTGACGGACCACGACTGGAGCCTCTTCAACAGTATCCACCAG
Seq A exon
GTATGGGAGGCAGAGCTGGGGGAGGAGAGCAGGCGGCGGGGCGCCCGGCTCGGCTCAGCACTCGCTGACCTCTCCTGCTGACCCCACCCAG
Seq C2 exon
GTGGAGCTGATCCACTATGTGCTGGGCCCCCAGCATCTGCGGGATGTCACCACCGCCAACCTGGAGCGCTTCATGCGCCGCTTCAATGAGCTGCAGTACTGGGTGGCCACCGAGCTGTGTCTCTGCCCCGTGCCCGGCCCCCGGGCCCAGCTGCTCAGGAAGTTCATTAAGCTGGCGGCCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000079337:ENST00000449771:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.142 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=PU(12.9=57.1)
A:
NA
C2:
PF0061714=RasGEF=FE(69.0=100),PF0061714=RasGEF=PU(0.1=0.0)
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:
GACCTGGTGAGTGCCAAGGA
R:
TACTGCAGCTCATTGAAGCGG
Band lengths:
173-264
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