Variant report

Variant	rs34520677
Chromosome Location	chr6:132409570-132409571
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr6:132409199-132409732	H1-neurons	neurons:	n/a	n/a
2	REST	chr6:132409254-132409644	H1-neurons	neurons:	n/a	n/a
3	POLR2A	chr6:132409265-132409690	H1-neurons	neurons:	n/a	n/a

Variant related genes	Relation type
ENSG00000236166	TF binding region

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs11961001	0.84[ASN][1000 genomes]
rs11962845	0.84[ASN][1000 genomes]
rs11965300	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11967791	0.84[ASN][1000 genomes]
rs12665838	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13209044	0.84[ASN][1000 genomes]
rs13209246	0.84[ASN][1000 genomes]
rs13214059	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13217734	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17060999	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17061002	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17061005	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17277038	0.84[ASN][1000 genomes]
rs1980442	0.86[ASN][1000 genomes]
rs2014218	0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34254593	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34703643	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34837500	0.84[ASN][1000 genomes]
rs34942968	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35023618	0.86[ASN][1000 genomes]
rs35322316	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35442626	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35599250	0.82[ASN][1000 genomes]
rs4425614	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs55687705	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs55722159	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56079441	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56202806	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56231728	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56317827	0.86[ASN][1000 genomes]
rs60353841	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs67724714	0.86[ASN][1000 genomes]
rs68052689	0.84[ASN][1000 genomes]
rs6914252	0.91[ASN][1000 genomes]
rs6922298	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7740997	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7748412	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7749832	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7758139	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7758288	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7762460	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7770114	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7770134	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7770728	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7772154	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7775855	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9321320	0.82[ASN][1000 genomes]
rs9493173	0.82[ASN][1000 genomes]
rs9493175	0.82[ASN][1000 genomes]
rs969522	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2762616	chr6:132404708-132584324	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:132404000-132410400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr6:132405800-132409600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr6:132406800-132409600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr6:132406800-132409600	Enhancers	HUVEC	blood vessel
5	chr6:132406800-132410000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr6:132406800-132410400	Enhancers	Muscle Satellite Cultured Cells	--
7	chr6:132407200-132410000	Weak transcription	HUES64 Cell Line	embryonic stem cell
8	chr6:132407200-132411600	Weak transcription	Pancreas	Pancrea
9	chr6:132407200-132420400	Weak transcription	Aorta	Aorta
10	chr6:132408200-132417600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr6:132408600-132409600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr6:132408600-132410200	Enhancers	ES-I3 Cell Line	embryonic stem cell
13	chr6:132408600-132411000	Enhancers	iPS-20b Cell Line	embryonic stem cell
14	chr6:132408800-132410000	Weak transcription	Brain Germinal Matrix	brain
15	chr6:132408800-132410400	Enhancers	H1 Cell Line	embryonic stem cell
16	chr6:132409000-132410200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr6:132409200-132409600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
18	chr6:132409200-132411200	Enhancers	HUES48 Cell Line	embryonic stem cell
19	chr6:132409400-132409600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr6:132409400-132409600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links