Variant report

Variant	rs839812
Chromosome Location	chr1:77674084-77674085
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:77673903..77675950-chr1:77678224..77680465,2	K562	blood:
2	chr1:77669001..77671084-chr1:77671530..77674115,2	MCF-7	breast:

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs1098123	0.80[YRI][hapmap]
rs1098124	1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs11162308	1.00[CEU][hapmap]
rs1721152	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1779167	0.82[YRI][hapmap]
rs1779182	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2177430	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.91[AMR][1000 genomes]
rs2653468	0.95[LWK][hapmap];0.82[YRI][hapmap];0.80[AFR][1000 genomes]
rs2653470	1.00[CEU][hapmap];0.82[YRI][hapmap];0.82[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs2799565	1.00[CEU][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55957022	0.81[AFR][1000 genomes]
rs58815389	0.91[AMR][1000 genomes]
rs61484997	0.91[AMR][1000 genomes]
rs74090599	0.83[AMR][1000 genomes]
rs74092420	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7546997	0.82[YRI][hapmap]
rs839806	0.82[YRI][hapmap]
rs839807	1.00[CEU][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs839811	0.82[YRI][hapmap]
rs839817	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs839819	1.00[CEU][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.91[AMR][1000 genomes]
rs839820	1.00[MEX][hapmap];0.84[YRI][hapmap]
rs839821	1.00[MEX][hapmap];0.91[YRI][hapmap];0.80[AFR][1000 genomes]
rs839833	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs839837	1.00[CEU][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.91[AMR][1000 genomes]
rs839838	1.00[CEU][hapmap];0.91[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs839839	0.91[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1006887	chr1:77566348-77698128	Weak transcription Active TSS Strong transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv520629	chr1:77584846-77695854	Strong transcription Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv525188	chr1:77655651-77695854	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:77626000-77684200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr1:77626800-77674800	Weak transcription	Ovary	ovary
3	chr1:77626800-77676200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
4	chr1:77643800-77674400	Weak transcription	Psoas Muscle	Psoas
5	chr1:77648400-77684000	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr1:77649000-77679800	Weak transcription	Primary T helper cells PMA-I stimulated	--
7	chr1:77650800-77684200	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr1:77652600-77683400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr1:77655200-77680400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
10	chr1:77655200-77684000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr1:77655600-77683200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
12	chr1:77657400-77680000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
13	chr1:77657400-77681200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
14	chr1:77659200-77683200	Weak transcription	Brain Angular Gyrus	brain
15	chr1:77661200-77676400	Weak transcription	Left Ventricle	heart
16	chr1:77666000-77679800	Weak transcription	Colon Smooth Muscle	Colon
17	chr1:77666800-77683400	Weak transcription	NHLF	lung
18	chr1:77670200-77680600	Weak transcription	Primary T helper cells fromperipheralblood	blood
19	chr1:77670200-77683800	Weak transcription	Primary T cells fromperipheralblood	blood
20	chr1:77670200-77684000	Weak transcription	Adipose Nuclei	Adipose
21	chr1:77671200-77683200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
22	chr1:77671800-77683200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
23	chr1:77671800-77683200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
24	chr1:77671800-77684200	Weak transcription	Fetal Intestine Small	intestine
25	chr1:77672000-77681400	Weak transcription	Primary T cells from cord blood	blood
26	chr1:77672000-77683200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr1:77672000-77684000	Weak transcription	Primary hematopoietic stem cells	blood
28	chr1:77672000-77684200	Weak transcription	Primary monocytes fromperipheralblood	blood
29	chr1:77672000-77684200	Weak transcription	Primary B cells from cord blood	blood
30	chr1:77672600-77684200	Weak transcription	Monocytes-CD14+_RO01746	blood
31	chr1:77673200-77683200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr1:77673600-77684200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links