HsaINT0136503 @ hg19
Intron Retention
Gene
ENSG00000161800 | RACGAP1
Description
Rac GTPase activating protein 1 [Source:HGNC Symbol;Acc:9804]
Coordinates
chr12:50386028-50386438:-
Coord C1 exon
chr12:50386333-50386438
Coord A exon
chr12:50386161-50386332
Coord C2 exon
chr12:50386028-50386160
Length
172 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
TTTAATATTCTTTTGCTTAGAGT
3' ss Score
6.31
Exon sequences
Seq C1 exon
AAATCACAGATGAAGACAACAGCATAGCTGCCATGTACCAAGCTGTTGGTGAACTGCCCCAGGCCAACAGGGACACATTAGCTTTCCTCATGATTCACTTGCAGAG
Seq A exon
GTGAGTACAGCAGAAACTTGTTCTGGGAGTTAGGGAATTTTTTTCCAAGGGGAAGATAATGTGGGTTGAGTGTTTGGGAGTATGAGGGATGAATTGTTTTCTTATAGAATTTATATTTTGGTCTGCATTTAAGCAAGGAGCAAGACTTCTAATTTAATATTCTTTTGCTTAG
Seq C2 exon
AGTGGCTCAGAGTCCACATACTAAAATGGATGTTGCCAATCTGGCTAAAGTCTTTGGCCCTACAATAGTGGCCCATGCTGTGCCCAATCCAGACCCAGTGACAATGTTACAGGACATCAAGCGTCAACCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000161800-RACGAP1:NM_001126103:15
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=0.133
Domain overlap (PFAM):
C1:
PF0062022=RhoGAP=FE(23.2=100),PF047849=DUF547=PD(9.1=25.0)
A:
NA
C2:
PF0062022=RhoGAP=PD(20.5=68.9)
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:
TCACAGATGAAGACAACAGCA
R:
TTGGGTTGACGCTTGATGTCC
Band lengths:
235-407
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)