Variant report

Variant	rs1884605
Chromosome Location	chr20:16283909-16283910
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:16283497..16285541-chr20:16396162..16399137,2	MCF-7	breast:

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs12624939	1.00[CHB][hapmap]
rs12625552	1.00[CHB][hapmap]
rs1590872	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1884603	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1884604	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1884606	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2093004	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2144883	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2144887	1.00[JPT][hapmap]
rs2180442	0.96[CEU][hapmap];1.00[CHB][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2208057	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2208058	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2208059	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2328016	0.92[CEU][hapmap];0.92[AFR][1000 genomes];0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2328017	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2328018	0.96[CEU][hapmap];1.00[CHB][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2328019	0.95[CEU][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4814469	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6034438	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6034439	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6034446	1.00[CHB][hapmap]
rs6034447	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6034460	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6034461	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6034487	1.00[CHB][hapmap]
rs6043852	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6043854	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6043858	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6043870	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6043879	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs6043881	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6043882	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6043887	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6043892	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6075048	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6080229	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6080243	1.00[JPT][hapmap];0.87[YRI][hapmap]
rs6105582	0.96[CEU][hapmap];1.00[CHB][hapmap];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6105603	1.00[CHB][hapmap]
rs6111006	0.85[YRI][hapmap]
rs7271622	1.00[CHB][hapmap]
rs8117949	1.00[CHB][hapmap]
rs8119246	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs8122535	1.00[CHB][hapmap]
rs913826	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][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	nsv833930	chr20:16134347-16302763	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:16247600-16290800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
2	chr20:16248600-16291400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr20:16252000-16289400	Weak transcription	Rectal Smooth Muscle	rectum
4	chr20:16254000-16290800	Weak transcription	Esophagus	oesophagus
5	chr20:16254000-16298400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr20:16254200-16284200	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr20:16262600-16285400	Weak transcription	Ovary	ovary
8	chr20:16262600-16346200	Weak transcription	Gastric	stomach
9	chr20:16264600-16284000	Weak transcription	Aorta	Aorta
10	chr20:16264800-16290800	Weak transcription	Lung	lung
11	chr20:16265000-16289000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr20:16265600-16284200	Weak transcription	Left Ventricle	heart
13	chr20:16265800-16289200	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr20:16270800-16302400	Weak transcription	Brain Hippocampus Middle	brain
15	chr20:16276400-16348200	Weak transcription	Colon Smooth Muscle	Colon
16	chr20:16277800-16286200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr20:16281600-16284600	ZNF genes & repeats	Liver	Liver
18	chr20:16282000-16286600	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
19	chr20:16282000-16287400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr20:16283400-16295800	Weak transcription	Fetal Lung	lung
21	chr20:16283600-16289400	Weak transcription	Fetal Muscle Trunk	muscle
22	chr20:16283800-16284600	ZNF genes & repeats	Primary B cells from cord blood	blood

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