HsaINT0137484 @ hg19
Intron Retention
Gene
ENSG00000108352 | RAPGEFL1
Description
Rap guanine nucleotide exchange factor (GEF)-like 1 [Source:HGNC Symbol;Acc:17428]
Coordinates
chr17:38346686-38347014:+
Coord C1 exon
chr17:38346686-38346783
Coord A exon
chr17:38346784-38346891
Coord C2 exon
chr17:38346892-38347014
Length
108 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
ATGCCCCTGCCTGCCACCAGGTG
3' ss Score
9.38
Exon sequences
Seq C1 exon
AGAAGGTCCTTCTCCAGCCCACTGAGGACTGTGTTTTCACCGCACTGGGCATCAACAGCCACCTGTTTGCCTGTACTCGGGACAGCTATGAGGCTCTG
Seq A exon
GTAAGAACTTCCCAAGGCCTTGACTGGAATGGAGGGCTGAGGAGGGCTGTGAGCAATCCCTCACCCTGCCACCAGGAGCCCAGCCCCTATGCCCCTGCCTGCCACCAG
Seq C2 exon
GTGCCCCTCCCCGAGGAGATCCAGGTCTCCCCTGGAGACACAGAGATCCACCGAGTGGAGCCTGAGGACGTTGCCAACCACCTAACTGCCTTCCACTGGGAGCTGTTCCGATGTGTGCATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000108352-RAPGEFL1:NM_016339:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.098
Domain overlap (PFAM):
C1:
PF0078818=RA=PD(24.4=57.6)
A:
NA
C2:
PF0061714=RasGEF=PU(13.0=58.5)
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:
AGAAGGTCCTTCTCCAGCCC
R:
ATGCACACATCGGAACAGCTC
Band lengths:
218-326
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)