Variant report

Variant	rs828640
Chromosome Location	chr6:72099853-72099854
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs1192035	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1192036	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1192039	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1192041	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1192042	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1192043	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1192044	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1192046	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1405847	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs701695	1.00[ASN][1000 genomes]
rs73520608	1.00[ASN][1000 genomes]
rs765466	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs828637	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs828639	1.00[ASN][1000 genomes]
rs828641	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs828643	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs828645	1.00[ASN][1000 genomes]
rs828646	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs828647	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs828659	1.00[AFR][1000 genomes]
rs9446370	1.00[JPT][hapmap]
rs9446392	1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[TSI][hapmap]
rs9446393	1.00[JPT][hapmap]

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	chr6:72076200-72103200	Weak transcription	Aorta	Aorta
2	chr6:72084200-72106600	Weak transcription	Fetal Muscle Trunk	muscle
3	chr6:72085800-72105400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr6:72088800-72101000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr6:72090400-72101000	Weak transcription	Gastric	stomach
6	chr6:72093400-72101200	Genic enhancers	Hela-S3	cervix
7	chr6:72093400-72106400	Weak transcription	Spleen	Spleen
8	chr6:72094000-72105200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr6:72094800-72100200	Enhancers	Fetal Intestine Small	intestine
10	chr6:72095000-72103600	Weak transcription	Stomach Mucosa	stomach
11	chr6:72095400-72103600	Weak transcription	Pancreatic Islets	Pancreatic Islet
12	chr6:72096800-72106000	Enhancers	Adipose Nuclei	Adipose
13	chr6:72097000-72101800	Enhancers	Skeletal Muscle Male	skeletal muscle
14	chr6:72097000-72102000	Enhancers	Liver	Liver
15	chr6:72097200-72102400	Genic enhancers	A549	lung
16	chr6:72097400-72100000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
17	chr6:72097400-72100200	Weak transcription	HUES6 Cell Line	embryonic stem cell
18	chr6:72097400-72100200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
19	chr6:72097400-72102600	Weak transcription	Rectal Smooth Muscle	rectum
20	chr6:72097600-72103400	Weak transcription	Cortex derived primary cultured neurospheres	brain
21	chr6:72098000-72100200	Weak transcription	HUES48 Cell Line	embryonic stem cell
22	chr6:72098200-72104800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr6:72098400-72100600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
24	chr6:72098400-72100800	Weak transcription	HSMMtube	muscle
25	chr6:72098400-72102600	Weak transcription	Placenta	Placenta
26	chr6:72098400-72102600	Weak transcription	Small Intestine	intestine
27	chr6:72098400-72103200	Weak transcription	Stomach Smooth Muscle	stomach
28	chr6:72098400-72105400	Weak transcription	Fetal Muscle Leg	muscle
29	chr6:72098400-72117200	Weak transcription	Pancreas	Pancrea
30	chr6:72098600-72100200	Weak transcription	HSMM	muscle
31	chr6:72098600-72102800	Weak transcription	Fetal Stomach	stomach
32	chr6:72098600-72103000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
33	chr6:72098600-72103600	Weak transcription	Brain Hippocampus Middle	brain
34	chr6:72098800-72100200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
35	chr6:72098800-72101400	Weak transcription	NHLF	lung
36	chr6:72098800-72103800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr6:72099000-72100200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
38	chr6:72099000-72100800	Weak transcription	Fetal Lung	lung
39	chr6:72099000-72101400	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr6:72099000-72101800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr6:72099000-72102600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
42	chr6:72099000-72102600	Weak transcription	Colon Smooth Muscle	Colon
43	chr6:72099000-72103000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr6:72099200-72100000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
45	chr6:72099200-72100000	Weak transcription	Brain Anterior Caudate	brain
46	chr6:72099200-72100000	Weak transcription	Fetal Kidney	kidney
47	chr6:72099200-72100200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
48	chr6:72099200-72100200	Weak transcription	Skeletal Muscle Female	skeletal muscle
49	chr6:72099200-72100800	Weak transcription	Brain Inferior Temporal Lobe	brain
50	chr6:72099200-72101000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links