Variant report

Variant	rs16888791
Chromosome Location	chr6:36522807-36522808
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:36521408..36523815-chr6:36528909..36531609,2	MCF-7	breast:
2	chr6:36522642..36525654-chr6:36546165..36549998,4	MCF-7	breast:
3	chr6:36520632..36523393-chr6:36561390..36564833,4	MCF-7	breast:
4	chr6:36302779..36304403-chr6:36521868..36524129,2	K562	blood:
5	chr6:36501299..36502934-chr6:36521260..36523247,2	MCF-7	breast:
6	chr6:36521237..36523227-chr6:36525376..36528336,2	K562	blood:
7	chr6:36510007..36526277-chr6:36558145..36566762,35	K562	blood:
8	chr6:36521727..36524987-chr6:36525376..36528528,3	K562	blood:
9	chr6:36522635..36525085-chr6:36558432..36560977,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000112081	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs12525802	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16888605	0.87[CEU][hapmap];0.93[CHB][hapmap];0.96[CHD][hapmap];0.88[JPT][hapmap];0.94[TSI][hapmap]
rs16888788	0.81[ASN][1000 genomes]
rs1744659	0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs1794628	0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2104219	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2395653	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41272166	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4236051	1.00[CHD][hapmap]
rs4713975	0.88[CEU][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.89[TSI][hapmap]
rs4713978	1.00[CEU][hapmap];0.93[CHB][hapmap];0.88[JPT][hapmap];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4713983	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57145488	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs57219009	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs57634930	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6457930	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs681253	0.83[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6905301	0.83[EUR][1000 genomes]
rs73417359	0.88[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7741729	0.81[ASW][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];0.91[MEX][hapmap];0.93[YRI][hapmap];0.89[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7762777	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap]
rs7762779	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7762785	1.00[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs853875	0.93[ASN][1000 genomes]
rs853878	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9800473	0.82[CHB][hapmap];0.88[JPT][hapmap];0.89[AMR][1000 genomes];0.83[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	nsv885806	chr6:36349890-36621178	Flanking Bivalent TSS/Enh Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	103 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	chr6:36516200-36524000	Weak transcription	A549	lung
2	chr6:36522200-36523600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr6:36522400-36523000	Enhancers	HSMM	muscle
4	chr6:36522400-36523200	Enhancers	Stomach Smooth Muscle	stomach
5	chr6:36522400-36523600	Enhancers	Muscle Satellite Cultured Cells	--
6	chr6:36522400-36523600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr6:36522400-36523600	Enhancers	Fetal Muscle Leg	muscle
8	chr6:36522600-36523000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr6:36522600-36523000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr6:36522600-36523000	Enhancers	Rectal Smooth Muscle	rectum
11	chr6:36522600-36523000	Flanking Active TSS	HSMMtube	muscle
12	chr6:36522600-36523000	Flanking Active TSS	Osteobl	bone
13	chr6:36522600-36523200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr6:36522600-36523400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr6:36522600-36523800	Enhancers	NHDF-Ad	bronchial
16	chr6:36522600-36524000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr6:36522800-36523400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr6:36522800-36523600	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr6:36522800-36524000	Weak transcription	Hela-S3	cervix
20	chr6:36522800-36526600	Weak transcription	Adipose Nuclei	Adipose

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