HsaALTA0003211-2/2 @ hg19
Alternative 3'ss
Gene
ENSG00000148343 | FAM73B
Description
family with sequence similarity 73, member B [Source:HGNC Symbol;Acc:23621]
Coordinates
chr9:131823510-131825595:+
Coord C1 exon
chr9:131823510-131823625
Coord A exon
chr9:131825452-131825522
Coord C2 exon
chr9:131825523-131825595
Length
71 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CCTCCCCCCTCCCCACCCAGGTG
3' ss Score
11.73
Exon sequences
Seq C1 exon
CTCTTTGAGTCCCTGCAGACTGGAGATTACCCGATCCCACTCTCCAGACCCGCCGCTGCCTATGAGGAGGCCCTGCAGCTGGTGAAGGAGGGGAGAGTGCCTTGCCGGACCCTCAG
Seq A exon
GTGCCACCTGACCCCCCGGGGCATCGCTGGGCAGGGACCAGGTTGTGTGACGCCGTCTGTCCTCCCCTCAG
Seq C2 exon
GACGGAGCTGCTGGGCTGCTACAGTGACCAGGACTTTCTGGCCAAGCTGCACTGTGTGCGGCAGGCCTTCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148343-21-27,21-26-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.017 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF102654=DUF2217=FE(12.2=100)
A:
NA
C2:
PF102654=DUF2217=FE(4.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTCCCTGCAGACTGGAGATT
R:
CACACAGTGCAGCTTGGCC
Band lengths:
167-238
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- 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)