HsaINT0136498 @ hg19
Intron Retention
Gene
ENSG00000161800 | RACGAP1
Description
Rac GTPase activating protein 1 [Source:HGNC Symbol;Acc:9804]
Coordinates
chr12:50392924-50393516:-
Coord C1 exon
chr12:50393399-50393516
Coord A exon
chr12:50393055-50393398
Coord C2 exon
chr12:50392924-50393054
Length
344 bp
Sequences
Splice sites
5' ss Seq
CAGGTCCAT
5' ss Score
0.82
3' ss Seq
AAAAGTTGCTTGTTTTCTAGGTA
3' ss Score
6.81
Exon sequences
Seq C1 exon
GGGAATGAATCCATAGTTGCAAAAACTACAGTGACTGTTCCCAATGATGGCGGGCCCATCGAAGCTGTGTCCACTATTGAGACTGTGCCATATTGGACCAGGAGCCGAAGGAAAACAG
Seq A exon
GTCCATTGAATTTGTGACTAAACTGGCCTGTGTAAAACAACTAGCAAAATTTTGGAGAGTTGGTTTCTTAGAACCCTCTGGAGGCGGGGATTGGATGTATTGGGTAGTTTCTTACTGCTGCATACCGAGGACCAGAGAACTGCTTGTGTCATGCTTTACCTTTGAATTGCTAGCCCACTGGCATAACTTTAGTTTTTCTTGAAACTGTTTTTTTACATAGCCATTAGTTCTCACTTTTGGCTATGATAACAGATTACTGTTTATCTCCCAGTTAAAATTGGAGCTAAAATTTAGAAGGAGCAAAATACTTAAGACACAAAGCTTAAAAGTTGCTTGTTTTCTAG
Seq C2 exon
GTACTTTACAACCTTGGAACAGTGACTCCACCCTGAACAGCAGGCAGCTGGAGCCAAGAACTGAGACAGACAGTGTGGGCACGCCACAGAGTAATGGAGGGATGCGCCTGCATGACTTTGTTTCTAAGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000161800-RACGAP1:NM_001126103:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.675 A=NA C2=0.864
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0013017=C1_1=PU(11.5=13.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAAAAACTACAGTGACTGTTCCC
R:
GTCTTAGAAACAAAGTCATGCAGGC
Band lengths:
230-574
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)