HsaINT0137475 @ hg19
Intron Retention
Gene
ENSG00000108352 | RAPGEFL1
Description
Rap guanine nucleotide exchange factor (GEF)-like 1 [Source:HGNC Symbol;Acc:17428]
Coordinates
chr17:38348465-38348945:+
Coord C1 exon
chr17:38348465-38348515
Coord A exon
chr17:38348516-38348857
Coord C2 exon
chr17:38348858-38348945
Length
342 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGT
5' ss Score
11.45
3' ss Seq
TCTCTCCTGTGGAATACTAGGAC
3' ss Score
5.62
Exon sequences
Seq C1 exon
AAGCTGCCAGGGAAATTCAAGAACTTGTTTCGCAAATTTGAGAACCTGACG
Seq A exon
GTGAGTGGGTTTGGCTCTTTCTTCTGCTCTTGGACTGAGAGCCCAGAAACCCTCTGTTCCCATAAACCCCCTTCCTCAAGCTTTCCTTTCAAGGTGTTTAGTGTATGGGACCCCCCACCCTCCTTACCATGCTGGAGGGTGAGGTTGGAAGGATTGCGCCCCTGTTTTTCTTGAAGGAAAGGGGGAGTAGTCAGGTCCCTCCCCACCACACCATTAGAAAGCCCCCAGCACCCCTATCTGATCAGGAATGTATACAAGGCAGGGGGTGAGGGAGGAAGCTGAGGACATCTTTGGGATGCATTGGCCAGTCTGTCCCTTGATCTCTCTCCTGTGGAATACTAG
Seq C2 exon
GACCCCTGCAGGAACCACAAAAGCTACCGAGAAGTGATCTCCAAAATGAAGCCCCCTGTGATTCCCTTCGTGCCTCTGATCCTCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000108352-RAPGEFL1:NM_016339:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=FE(8.6=100)
A:
NA
C2:
PF0061714=RasGEF=FE(15.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
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)