Variant report

Variant	rs6557083
Chromosome Location	chr6:151032387-151032388
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:151032065..151034026-chr6:151038847..151040382,2	K562	blood:
2	chr6:151031833..151034692-chr6:151036440..151039323,2	MCF-7	breast:

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs12663498	1.00[JPT][hapmap]
rs1494308	1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes]
rs1552886	0.82[AMR][1000 genomes]
rs1552889	0.80[AMR][1000 genomes]
rs17080087	1.00[JPT][hapmap]
rs17080091	1.00[JPT][hapmap]
rs17080102	1.00[JPT][hapmap]
rs1874096	0.92[EUR][1000 genomes]
rs1874097	0.90[YRI][hapmap];0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs654698	1.00[JPT][hapmap]
rs6557082	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6557087	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6905228	1.00[CEU][hapmap];1.00[GIH][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6919871	1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.96[AMR][1000 genomes]
rs6929935	1.00[JPT][hapmap]
rs7776166	1.00[CEU][hapmap];0.81[MEX][hapmap];0.93[TSI][hapmap];0.98[EUR][1000 genomes]
rs9322273	1.00[JPT][hapmap]
rs9322274	1.00[JPT][hapmap]
rs9397343	0.84[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	nsv1030326	chr6:150967665-151641372	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
2	esv3439835	chr6:151027582-151036981	Enhancers Weak transcription Genic enhancers Strong transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv1019919	chr6:151028969-151161789	Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
4	nsv538474	chr6:151028969-151161789	Genic enhancers Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:151015200-151033200	Weak transcription	Right Atrium	heart
2	chr6:151019000-151033000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr6:151019000-151033200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr6:151019000-151035200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr6:151021600-151033000	Weak transcription	Fetal Stomach	stomach
6	chr6:151021600-151040600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr6:151024200-151034200	Weak transcription	Right Ventricle	heart
8	chr6:151024400-151032800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr6:151025600-151033200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr6:151026000-151033600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr6:151026800-151033200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr6:151026800-151043600	Weak transcription	Fetal Muscle Trunk	muscle
13	chr6:151027000-151033200	Weak transcription	Fetal Intestine Small	intestine
14	chr6:151027200-151033000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
15	chr6:151027400-151033200	Weak transcription	Fetal Kidney	kidney
16	chr6:151029000-151033000	Weak transcription	Small Intestine	intestine
17	chr6:151029200-151033000	Weak transcription	Fetal Lung	lung
18	chr6:151029200-151033200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr6:151029400-151033200	Weak transcription	Fetal Muscle Leg	muscle
20	chr6:151029400-151033200	Weak transcription	Placenta	Placenta
21	chr6:151029400-151041800	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr6:151029600-151033000	Weak transcription	Spleen	Spleen
23	chr6:151029600-151033200	Weak transcription	Left Ventricle	heart
24	chr6:151029800-151032800	Weak transcription	Adipose Nuclei	Adipose
25	chr6:151029800-151033200	Strong transcription	Primary B cells from cord blood	blood
26	chr6:151030800-151034200	Enhancers	Stomach Mucosa	stomach
27	chr6:151031200-151032400	Enhancers	Sigmoid Colon	Sigmoid Colon
28	chr6:151031200-151033200	Weak transcription	Pancreas	Pancrea
29	chr6:151031200-151034200	Enhancers	Rectal Mucosa Donor 31	rectum
30	chr6:151031400-151032400	Enhancers	Esophagus	oesophagus
31	chr6:151031400-151033000	Strong transcription	Primary B cells from peripheral blood	blood
32	chr6:151031400-151033200	Weak transcription	NHEK	skin
33	chr6:151031600-151032600	Strong transcription	Thymus	Thymus
34	chr6:151032000-151033200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr6:151032000-151033200	Weak transcription	Rectal Mucosa Donor 29	rectum
36	chr6:151032200-151033000	Weak transcription	Duodenum Mucosa	Duodenum
37	chr6:151032200-151033000	Weak transcription	Fetal Thymus	thymus
38	chr6:151032200-151033200	Weak transcription	Colonic Mucosa	Colon
39	chr6:151032200-151033200	Weak transcription	Lung	lung
40	chr6:151032200-151037600	Weak transcription	Gastric	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links