HsaINT0137361 @ hg38
Intron Retention
Gene
ENSG00000079337 | RAPGEF3
Description
Rap guanine nucleotide exchange factor 3 [Source:HGNC Symbol;Acc:HGNC:16629]
Coordinates
chr12:47747712-47748152:-
Coord C1 exon
chr12:47748074-47748152
Coord A exon
chr12:47747863-47748073
Coord C2 exon
chr12:47747712-47747862
Length
211 bp
Sequences
Splice sites
5' ss Seq
CCAATATCC
5' ss Score
-12.74
3' ss Seq
TTCCCTTGACTGGTGCCCACCTT
3' ss Score
-5.98
Exon sequences
Seq C1 exon
AGACATTCCTCAGCGACTTCCTCCTGACCCACAGGGTCTTCATGCCCAGCGCCCAACTCTGCGCTGCCCTTCTGCACCA
Seq A exon
ATATCCTTCCAGCTCCAGGGGGATGGTGTGCATGGGGATAGGATGGTGCGTGGGGTTGAGAGAAAATCTCACCAGCGTGGCTGTGCTGAGCCCTTTAAATGCCAGCCTGCTGCCAGGCCCAGCTTGCCAGGGGCCCTGGGCATCCTGCCCCTCCTTTGCCTCAGGTGGGTGGCCCTGCTTGGATGTTGTGGTTCCCTTGACTGGTGCCCAC
Seq C2 exon
CTTCCATGTGGAGCCTGCGGGTGGCAGCGAGCAGGAGCGCAGCACCTACGTCTGCAACAAGAGGCAGCAGATCTTGCGGCTGGTCAGCCAGTGGGTGGCCCTGTATGGCTCCATGCTCCACACTGACCCTGTGGCCACCAGCTTCCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000079337:ENST00000449771:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.081
Domain overlap (PFAM):
C1:
PF0061815=RasGEF_N=FE(23.6=100)
A:
NA
C2:
PF0061815=RasGEF_N=FE(45.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGACATTCCTCAGCGACTTCCT
R:
CTGGAGGAAGCTGGTGGCC
Band lengths:
230-441
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