Variant report

Variant	rs35772309
Chromosome Location	chr2:190088354-190088355
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:190012942..190018195-chr2:190085147..190088368,4	MCF-7	breast:
2	chr2:190077868..190079394-chr2:190086183..190089052,2	MCF-7	breast:
3	chr2:190043908..190047710-chr2:190084994..190089422,4	MCF-7	breast:
4	chr2:190085609..190089806-chr2:190139492..190143052,4	MCF-7	breast:
5	chr2:189957884..189960424-chr2:190085225..190088535,3	MCF-7	breast:
6	chr2:190010189..190015498-chr2:190084856..190090227,6	MCF-7	breast:
7	chr2:190087466..190090346-chr2:190148672..190151105,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000204262	Chromatin interaction
ENSG00000228073	Chromatin interaction

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10931404	0.86[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs11681286	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11691604	0.90[ASN][1000 genomes]
rs12105389	0.94[ASN][1000 genomes]
rs12611950	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12615823	0.91[ASN][1000 genomes]
rs12618438	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12621035	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12621806	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12621939	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12991770	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12993719	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12999122	0.90[AFR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12999996	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13005652	0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13005821	0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13011374	0.84[ASN][1000 genomes]
rs13012327	0.90[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs13015283	0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13016231	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13017413	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13019076	0.93[ASN][1000 genomes]
rs13021508	0.86[ASN][1000 genomes]
rs13022633	0.87[ASN][1000 genomes]
rs13028967	0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13029705	0.87[ASN][1000 genomes]
rs13031211	0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13031549	0.89[ASN][1000 genomes]
rs1356161	0.87[AFR][1000 genomes]
rs1356162	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1356163	0.89[ASN][1000 genomes]
rs1356164	0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1356165	0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1399991	0.94[ASN][1000 genomes]
rs1399992	0.92[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs1515874	0.91[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs1515876	0.90[ASN][1000 genomes]
rs1533618	0.90[AFR][1000 genomes]
rs1878085	0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1913892	0.82[AFR][1000 genomes]
rs1949484	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1965422	0.90[ASN][1000 genomes]
rs2222256	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35475196	0.91[ASN][1000 genomes]
rs3914778	0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4233801	0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4667271	0.89[AFR][1000 genomes]
rs4667272	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4667274	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4998559	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs60124911	0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6714088	0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6719104	0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6732534	0.82[AFR][1000 genomes]
rs7419888	0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7564611	0.87[ASN][1000 genomes]
rs7576165	0.85[ASN][1000 genomes]
rs7587147	0.92[AFR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7587956	0.90[AFR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7607133	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7609495	0.92[ASN][1000 genomes]
rs939160	0.81[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533029	chr2:189812229-190554339	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv875613	chr2:189999011-190324685	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:190076000-190096800	Weak transcription	Aorta	Aorta
2	chr2:190084800-190088600	Enhancers	Hela-S3	cervix
3	chr2:190087400-190088600	Enhancers	Muscle Satellite Cultured Cells	--
4	chr2:190087400-190090800	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr2:190087600-190088400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr2:190087600-190088400	Weak transcription	Rectal Mucosa Donor 29	rectum
7	chr2:190087600-190099800	Weak transcription	HSMM	muscle
8	chr2:190087800-190088600	Flanking Active TSS	A549	lung
9	chr2:190088000-190089000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
10	chr2:190088000-190089400	Enhancers	Primary T helper cells PMA-I stimulated	--
11	chr2:190088000-190089800	Enhancers	Primary T cells from cord blood	blood
12	chr2:190088200-190088400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr2:190088200-190088800	Enhancers	Primary T helper cells fromperipheralblood	blood

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