HsaINT0060207 @ hg19
Intron Retention
Gene
ENSG00000215187 | FAM166B
Description
family with sequence similarity 166, member B [Source:HGNC Symbol;Acc:34242]
Coordinates
chr9:35562872-35563386:-
Coord C1 exon
chr9:35563163-35563386
Coord A exon
chr9:35563078-35563162
Coord C2 exon
chr9:35562872-35563077
Length
85 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGT
5' ss Score
7.44
3' ss Seq
CCTTGTCCCTGCCTGCCCAGGTT
3' ss Score
8.22
Exon sequences
Seq C1 exon
GTACACTGGACACTGCCCACTACTTCGGTTCAGCGTGGGCCAGACCTATGGGCAGGTGACTGGTCAGCTACTTCGAGGCCCTCCTGGCCTAGCCTGGCCCCCTGTCCACCGCACACTTCTGCCTCCCATTCGGCCTCCAAGATCTCCTGAGGTTCCCAGGGAGAGTCTACCTGTCAGGCGTGGGCAAGAAAGGCTCAGCTCCAGCATGATCCCTGGGTACACAG
Seq A exon
GTTTGTACGCAGGTATGCACAGGTGCCCCTCCCAGGAGCATGTGTTCCAAACACTAACGAGTCTTCCTTGTCCCTGCCTGCCCAG
Seq C2 exon
GTTTTGTACCCCGGGCACAGTTCATCTTTGCCAAGAACTGCAGCCAGGTCTGGGCCGAGGCTCTGAGTGACTTTACTCACTTGCATGAAAAGCAAGGGAGTGAAGAGCTACCAAAGGAGGCCAAGGGAAGAAAGGACACAGAGAAGGACCAGGTGCCAGAGCCGGAGGGGCAGCTGGAGGAGCCGACACTGGAGGTGGTGGAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000215187-FAM166B:NM_001099951:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.474 A=NA C2=0.616
Domain overlap (PFAM):
C1:
PF106294=DUF2475=PD(89.1=75.0),PF106294=DUF2475=PU(12.9=11.8)
A:
NA
C2:
PF106294=DUF2475=PD(85.7=87.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCAGCATGATCCCTGGGTA
R:
ACCTGGTCCTTCTCTGTGTCC
Band lengths:
180-265
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)