Variant report

Variant	rs9393666
Chromosome Location	chr6:25751383-25751384
allele	A/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	chr6:25751201-25751546	H1-neurons	neurons:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr6:25751340..25754236-chr6:25902948..25905113,2	K562	blood:
2	chr6:25743504..25745578-chr6:25750590..25752967,2	MCF-7	breast:
3	chr6:25744533..25749144-chr6:25750349..25753666,4	K562	blood:

Variant related genes	Relation type
SLC17A4	TF binding region

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs2328902	0.86[AFR][1000 genomes]
rs28433902	1.00[EUR][1000 genomes]
rs4236038	0.92[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs4379284	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4484510	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6456700	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6924093	1.00[EUR][1000 genomes]
rs6927402	1.00[EUR][1000 genomes]
rs6928040	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6928384	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6933573	1.00[EUR][1000 genomes]
rs6933725	1.00[EUR][1000 genomes]
rs73383224	1.00[EUR][1000 genomes]
rs73383248	1.00[EUR][1000 genomes]
rs73383256	1.00[EUR][1000 genomes]
rs73383283	1.00[EUR][1000 genomes]
rs73383287	1.00[EUR][1000 genomes]
rs73385003	1.00[EUR][1000 genomes]
rs73385005	1.00[EUR][1000 genomes]
rs73385008	1.00[EUR][1000 genomes]
rs73385013	1.00[EUR][1000 genomes]
rs73385016	1.00[EUR][1000 genomes]
rs73385046	1.00[EUR][1000 genomes]
rs73385068	1.00[EUR][1000 genomes]
rs73385070	1.00[EUR][1000 genomes]
rs73385071	1.00[EUR][1000 genomes]
rs73401728	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7741430	1.00[EUR][1000 genomes]
rs7749059	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7751690	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7752451	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7765800	1.00[EUR][1000 genomes]
rs7766892	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7776337	1.00[EUR][1000 genomes]
rs9358868	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9467580	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1029920	chr6:25638507-26585842	Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1215 gene(s)	inside rSNPs	diseases
2	nsv538162	chr6:25638507-26585842	Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1215 gene(s)	inside rSNPs	diseases
3	nsv427747	chr6:25641380-25908218	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
4	nsv969355	chr6:25733459-25779530	Genic enhancers Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25744600-25755000	Weak transcription	Pancreas	Pancrea
2	chr6:25747200-25754800	Enhancers	Fetal Intestine Large	intestine
3	chr6:25747800-25754800	Enhancers	Fetal Intestine Small	intestine
4	chr6:25748600-25752800	Enhancers	Rectal Mucosa Donor 31	rectum
5	chr6:25748600-25753400	Weak transcription	Liver	Liver
6	chr6:25749200-25752600	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr6:25750400-25753400	Weak transcription	Duodenum Mucosa	Duodenum
8	chr6:25751000-25751800	Enhancers	Small Intestine	intestine
9	chr6:25751200-25753400	Weak transcription	HepG2	liver
10	chr6:25751200-25753800	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr6:25751200-25754000	Weak transcription	Colonic Mucosa	Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links