Variant report

Variant	rs16881235
Chromosome Location	chr6:72104750-72104751
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	chr6:72102188..72105063-chr6:72213344..72216016,2	MCF-7	breast:

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10214508	0.92[EUR][1000 genomes]
rs10485017	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13197578	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13202330	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13203324	0.97[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs1358379	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1405849	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1527708	0.89[EUR][1000 genomes]
rs1527709	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1527710	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1527711	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1527713	0.92[EUR][1000 genomes]
rs16881149	1.00[CEU][hapmap]
rs16881181	1.00[CEU][hapmap]
rs16881296	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1852579	0.92[EUR][1000 genomes]
rs1881033	0.89[EUR][1000 genomes]
rs2146370	1.00[CEU][hapmap]
rs35217364	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35663023	0.85[EUR][1000 genomes]
rs35995963	0.96[EUR][1000 genomes]
rs6918170	0.92[EUR][1000 genomes]
rs71555485	0.85[EUR][1000 genomes]
rs7765945	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9455448	1.00[CEU][hapmap]
rs9455449	1.00[CEU][hapmap]
rs9455454	0.92[EUR][1000 genomes]
rs980027	1.00[CEU][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[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	nsv830684	chr6:72094842-72282684	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	488 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:74 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:72084200-72106600	Weak transcription	Fetal Muscle Trunk	muscle
2	chr6:72085800-72105400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr6:72093400-72106400	Weak transcription	Spleen	Spleen
4	chr6:72094000-72105200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr6:72096800-72106000	Enhancers	Adipose Nuclei	Adipose
6	chr6:72098200-72104800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr6:72098400-72105400	Weak transcription	Fetal Muscle Leg	muscle
8	chr6:72098400-72117200	Weak transcription	Pancreas	Pancrea
9	chr6:72099200-72106200	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr6:72099600-72114400	Weak transcription	Fetal Intestine Large	intestine
11	chr6:72099800-72104800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr6:72100200-72106400	Enhancers	Skeletal Muscle Female	skeletal muscle
13	chr6:72100200-72113200	Weak transcription	Fetal Intestine Small	intestine
14	chr6:72101000-72106400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr6:72101000-72113200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr6:72101400-72104800	Weak transcription	Brain Angular Gyrus	brain
17	chr6:72101400-72106400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr6:72101600-72104800	Genic enhancers	Hela-S3	cervix
19	chr6:72101600-72111400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr6:72101800-72105000	Enhancers	Placenta Amnion	Placenta Amnion
21	chr6:72101800-72105400	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr6:72101800-72105800	Weak transcription	Gastric	stomach
23	chr6:72101800-72105800	Weak transcription	Lung	lung
24	chr6:72101800-72106400	Enhancers	NHDF-Ad	bronchial
25	chr6:72101800-72106600	Enhancers	Osteobl	bone
26	chr6:72102000-72104800	Weak transcription	Left Ventricle	heart
27	chr6:72102000-72105400	Enhancers	HMEC	breast
28	chr6:72102600-72104800	Weak transcription	Right Ventricle	heart
29	chr6:72102600-72105000	Enhancers	Rectal Smooth Muscle	rectum
30	chr6:72102600-72106600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr6:72102600-72106600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr6:72102600-72106600	Enhancers	NH-A	brain
33	chr6:72102600-72106800	Enhancers	Colon Smooth Muscle	Colon
34	chr6:72103000-72104800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr6:72103000-72106400	Enhancers	HSMMtube	muscle
36	chr6:72103000-72107200	Enhancers	Skeletal Muscle Male	skeletal muscle
37	chr6:72103200-72106000	Enhancers	NHEK	skin
38	chr6:72103200-72106400	Enhancers	HUVEC	blood vessel
39	chr6:72103200-72106800	Enhancers	Duodenum Smooth Muscle	Duodenum
40	chr6:72103400-72105400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
41	chr6:72103400-72106400	Enhancers	Fetal Lung	lung
42	chr6:72103400-72106600	Enhancers	Cortex derived primary cultured neurospheres	brain
43	chr6:72103400-72114400	Weak transcription	Small Intestine	intestine
44	chr6:72103600-72106600	Enhancers	Brain Anterior Caudate	brain
45	chr6:72103800-72104800	Weak transcription	Aorta	Aorta
46	chr6:72103800-72106400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
47	chr6:72104000-72104800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
48	chr6:72104000-72104800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
49	chr6:72104000-72104800	Weak transcription	Brain Substantia Nigra	brain
50	chr6:72104000-72104800	Weak transcription	Placenta	Placenta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links