HsaINT0060202 @ hg19
Intron Retention
Gene
ENSG00000188163 | FAM166A
Description
family with sequence similarity 166, member A [Source:HGNC Symbol;Acc:33818]
Coordinates
chr9:140139541-140140009:-
Coord C1 exon
chr9:140139759-140140009
Coord A exon
chr9:140139671-140139758
Coord C2 exon
chr9:140139541-140139670
Length
88 bp
Sequences
Splice sites
5' ss Seq
CAGGCAGCC
5' ss Score
-0.62
3' ss Seq
CCGCTTCCTCCCCGCTCCAGCTG
3' ss Score
8.4
Exon sequences
Seq C1 exon
GTCTGAAGCCCTCTAAGAACTTTGAGATTCTGGGCCAGCTCCCACCCTTGGAGGTGGACGCCCAGGAGCCGCCAGGGGTAGAGAACATACCCAGACAGATTCTGCTGCCTGCAGGCTTCACGCCCGACACCCCGCACCCTCCGTGCCCACCAGGCAGGAAGGGAGACTCCAGAGACTTGGGACACCCAGTATACGGGGAAGAGGCCTGGAAGAGCGCCACTCCTGTTTGCGAGGCCCCCAGGCAGCACCAG
Seq A exon
GCAGCCAGGGGATGCACCAGTGCCAAGCCCATTCCGCTCAGCCCCAGGTGGGAGCTGCACCGTGACCTCCGCTTCCTCCCCGCTCCAG
Seq C2 exon
CTGTACCACTGCCAGAGGGATGAGTACCCACCCCCCGCCCGCCGCCAGCAGGAGACGCTAGATGTGGGCAGCTTCCAGCGGCTGCCGCAGCTGGACCACCCTAACCTAATCCAACGCAAGGCCATCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000188163-FAM166A:NM_001001710:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.704 A=NA C2=0.813
Domain overlap (PFAM):
C1:
PF106294=DUF2475=PD(89.6=32.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTATACGGGGAAGAGGCCTG
R:
TAGGTTAGGGTGGTCCAGCTG
Band lengths:
172-260
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)