HsaINT0136387 @ hg19
Intron Retention
Gene
ENSG00000011454 | RABGAP1
Description
RAB GTPase activating protein 1 [Source:HGNC Symbol;Acc:17155]
Coordinates
chr9:125852037-125852664:+
Coord C1 exon
chr9:125852037-125852129
Coord A exon
chr9:125852130-125852553
Coord C2 exon
chr9:125852554-125852664
Length
424 bp
Sequences
Splice sites
5' ss Seq
GAGGTTTGT
5' ss Score
6.36
3' ss Seq
GGTTTCTTTCTACCCTTCAGCGG
3' ss Score
6.88
Exon sequences
Seq C1 exon
ATTAGTCAGAAGAAGTTGAAAAAATACGAGAAAGAATATCACACCATGAGGGAACAGCAGGCCCAGCAAGAAGACCCCATCGAGCGATTTGAG
Seq A exon
GTTTGTTTGCTTATGGCCTACGTGTGAGGAGCTCCCATGCTTTCATTTCATATGATTGCGCCTGTAACTAGCTTTATTGAGTCCTTTTTAAAATTCAATTCCTCTGTAGGTTCAGGTTTGAGTTTGCAAATTAGCAAGCAAGATCTGTTTTTGCTTCAAACCAGCTGCCTGGTTTGTTACAGTTCAGTGGCTTTTCGTCACAGTTAACAAATAGTAGGTGCTTGACAAAGTCACTTGAATCAGTTAAGTATTTCTTTATGGAGCTAGAAAATAAGAAATTGTTGATTTGGAAACACATCAGGTCCAGCCATTTCTCTTATTGTTTCCATAGGACTTAGAAATTTATTTTGAGGTTTAGCCCTGAGAAATTTTCATTTCCATCTGATTTTTATGTGTCTGTAACTGGTTTCTTTCTACCCTTCAG
Seq C2 exon
CGGGAGAATAGGCGTCTACAAGAAGCTAACATGAGGTTGGAACAGGAAAACGATGACTTAGCCCATGAGCTGGTGACCAGCAAGATTGCACTACGGAAGGACCTGGATAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000011454-RABGAP1:NM_012197:20
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.619 A=NA C2=0.362
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAATACGAGAAAGAATATCACACCA
R:
TATCCAGGTCCTTCCGTAGTGC
Band lengths:
182-606
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)