HsaINT0139895 @ hg19
Intron Retention
Gene
ENSG00000205517 | RGL3
Description
ral guanine nucleotide dissociation stimulator-like 3 [Source:HGNC Symbol;Acc:30282]
Coordinates
chr19:11515999-11517310:-
Coord C1 exon
chr19:11517095-11517310
Coord A exon
chr19:11516103-11517094
Coord C2 exon
chr19:11515999-11516102
Length
992 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
3' ss Seq
GCGTCCCCACCGCCTGGCAGCGC
3' ss Score
5.63
Exon sequences
Seq C1 exon
GAGCTCTTCTCCAAGGTGAGGCTCTACGAGTGCTTGGGCTCCGTGTGGTCGCAGAGGGACCGGCCGGGGGCTGCAGGCGCCTCCCCCACTGTGCGCGCCACCGTGGCCCAGTTCAACACCGTGACCGGCTGTGTGCTGGGTTCCGTGCTCGGAGCACCGGGCTTGGCCGCCCCGCAGAGGGCGCAGCGGCTGGAGAAGTGGATCCGCATCGCCCAG
Seq A exon
GTGTGTTGCGGGCGCGGAGAGGGGATGCGGGGGCGGGCCCTGGGGCAAGGGGAAAAAATGAGGGCTCCGGAGAGAGATAGGGGCGAGTCTAGGCGAGGGAGGGAACGGGGTGGAAAGTTGATACCTAGGGTGAGACTTGGGTTCAGGGAGGAGGGTCTGGGTCCTGCAGAGAGGCCGCGGGCACGACTAGGTCCCAAGGGAGCTGGGAGAAGTAGGGAGCCCGGACCGGAGAAGTCAAGGTCGGAGGCAGGGGCTGGAGGGGCAGCTGGGGAGGGGCTGGAGCCCGAGGGAGGAGGGAGGAAGGGAATCCTAGGGAATAAGTGGGAGTCTTGGTAGCTTGTCGGATGTGAGACAACACCCAGGGGTCCGACCTGGCGTCACAAGTCACGGGATCAGGCTGGGCGCAGTGACTCACGCCTGTAATCCCAGCACTTTGGGGAGAGGGAGGATCGCTTGAGCCCTTGAGTTTGAGACCAGCCTAGGCAACATAGTGAGACCAATGTTTCTAGAAAAAAAAAAAAAATTAAAAAAATTAAAAATGAGACTTACAAAAAAATTAGCCGGGTGTGGTGGTGTGCCCCTGTAATCCCAGCTACTTGGGAGGCTGAGGCAGGATAATCACTTGAACCCGGGAGGCGGAGGTTGCAGTGACTCGAGATCGGGCCACTGCATTCCAGCCTGGGGGATAAAGCGAGACTCTGTCCAAATAATTAATAATAATAATAATAATAAGCCATGCATGATGGCGCGCGCCTGTAGTCCCAGCTACTGAGGCAGGAGGCTGAGGCATGTGGATCGCTTAAGCCCAGGAATTCCAGGCAGCAAGTGAGCTATGATCGAGCCACTGCACTCCAGCCTGGGCCACAGACCCTATCTCTCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGATGAAGAAGTTTCAGGATGAAAGGTGGATAATGCCTGGGTCTGACCTGCGTCCCCACCGCCTGGCAG
Seq C2 exon
CGCTGCCGAGAACTGCGGAACTTCTCCTCCTTGCGCGCCATCCTGTCCGCCCTGCAATCTAACCCCATCTACCGGCTCAAGCGCAGCTGGGGGGCAGTGAGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000205517-RGL3:NM_001161616:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.202 A=NA C2=0.039
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=PU(83.6=98.4)
A:
NA
C2:
PF0061714=RasGEF=FE(16.1=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:
GAGCTCTTCTCCAAGGTGAGG
R:
CTGCGCTTGAGCCGGTAGAT
Band lengths:
302-1294
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)